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Author SHA1 Message Date
Nicky LeachandClaude Opus 5.5 d95fdd8d79 feat(observability): span the unnamed gaps in run preparation (#20396)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Before a task reaches the agent, the server prepares the run: it
reads the task, the workspace and the configuration, and then hands the
run to the native controller
> - With an OTLP endpoint, each preparation step emits a
`heartbeat.prepare.<phase>` or `native.controller.<phase>` span
> - On a hosted test deployment, 0.3 to 0.5 s of each `task.prepare`
sits between those spans, and about 0.5 s more sits between
`execution.dispatch_admission` and `native.coordinator.claim`
> - Nobody can say which step is slow in that time, so latency work in
this area is guesswork
> - This pull request adds spans around the existing awaited work in
those gaps, with the existing timing helpers and naming conventions
> - The benefit is that a trace of a slow preparation now names the step
that used the time

## Linked Issues or Issue Description

**What existing behavior does this improve?**
The OpenTelemetry trace of task preparation. Today it has unnamed gaps
between the named preparation spans.

**Subsystem affected**
Server: heartbeat run preparation and the native controller
(`server/src/services/heartbeat.ts`,
`server/src/services/native-runtime/native-session-executor.ts`).

**Current behavior**
On a hosted test deployment (8 runs per group), `task.prepare` takes 2.6
to 3.4 s. Between `heartbeat.prepare.runtime_state` and
`heartbeat.prepare.run_identity`, about 0.25 s has no span. Between
`execution.dispatch_admission` and `native.coordinator.claim`, about 0.5
s has no span, and in one pair of runs it was 1.4 s. Nobody can tell
which step used that time.

**Proposed behavior**
Spans name the existing awaited reads and writes in those gaps. The
change adds no reads and records no content. The operator endpoint gate
and the no-operation behaviour stay.

**Reason and benefit**
Latency work in this area needs a measurement. With these spans, a trace
of a slow preparation names the step that used the time, so a fix can be
confirmed or rejected after deployment.

**Breaking changes**
None. The change adds span names to the closed list. It changes no API,
schema or behaviour.

**Additional context**
The server uses postgres.js, which the auto-instrumentation does not
cover, so database spans do not fill these gaps.

## What Changed

- `server/src/services/execution-preparation-timing.ts`: add the new
closed phase names.
- `server/src/services/heartbeat.ts`: add `heartbeat.prepare.*` spans
for `chat_retry_admission`, `workspace_selection`,
`dependency_readiness`, `issue_checkout`, `instance_settings`,
`workspace_context`, `project_context`, `plan_wake_routing`,
`routine_environment`, `responsible_user` and `execution_start`. The
re-reads of the issue after a checkout use the existing `issue_context`
name.
- `server/src/services/native-runtime/native-session-executor.ts`: add
`native.controller.*` spans for `attachment_staging`, `warm_restore`,
`span_persistence` (persistence of the preparation spans to the run log)
and `state_migration` before the coordinator claim.
- `doc/observability.md`: list the new spans.
- `server/src/__tests__/heartbeat-preparation-gap-spans.test.ts`: run a
real heartbeat through native preparation with an in-memory span
exporter. Check that each new span is emitted and that the new
preparation spans are children of `task.execution_attempt`.

## Verification

- `pnpm --filter @paperclipai/server typecheck`
- `npx vitest run src/__tests__/heartbeat-preparation-gap-spans.test.ts`
(fails without the source change, passes with it)
- `npx vitest run
src/services/heartbeat/preparation-timing-context.test.ts
src/services/execution-preparation-timing.test.ts
src/services/native-runtime/native-session-executor.test.ts
src/__tests__/heartbeat-context-compaction-execution.test.ts`

## Risks

- Low risk. The change only wraps existing awaited calls. Values and
errors pass through the timing helper unchanged, and a checkout conflict
still reaches the same `catch`.
- Phases of 50 ms or more inside `heartbeat.prepare.*` are also written
to the run log, as for the existing phases. This adds a few run-log rows
on slow runs.
- Without an OTLP endpoint, the helpers keep their current no-operation
behaviour.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), Anthropic, used through Claude
Code with tool use (shell, file edits, test runs) and extended thinking.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 15:27:58 -08:00
DottaandClaude Opus 5.5 09241442ea fix(server): let a native reviewer approve its review stage (#20373)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Execution policies can require an independent review stage before a
task is done
> - A native (Runner) agent that is the active reviewer had no way to
record its decision
> - `PATCH status: "done"` is refused for a native run that owns the
task (#18411), and `paperclip_finish` accepts the report but leaves the
stage pending
> - The reviewer then searches the API until a deadline, and the task
stays in review with nobody able to decide it
> - This pull request records the final-stage approval on `PATCH`
without releasing the run's lock, and lets the run's own finish report
set the final status
> - The benefit is that an agent reviewer can actually approve its
review stage, in one short turn

## Linked Issues or Issue Description

Refs #18411 (added the native status guard). Related: #20264 (explicit
stage-decision operation, still open; this change is narrower and
compatible with it).

**What happened?**

A native reviewer agent was woken as the active `review` participant. It
read the deliverable and wrote its review in about 100 seconds. It then
called `paperclip_finish` with `done`. The tool answered "Completion
report accepted; the task's configured review stage is still pending".
It then tried `PATCH /api/issues/{id}` with `status: "done"` and a
comment. The route refused it with
`native_run_status_reported_by_finish`. The agent searched the API for 2
more minutes and found no other path. The stage stayed pending. When the
run ends with `done`, the status arbiter sees the pending stage and
keeps the task in review (`governed_gate_pending`), so the stage can
never resolve.

**Expected behavior**

The active review/approval participant can approve its stage from a
native run. The task reaches `done` after the approval. The implementer
still cannot approve. A run that is not the active participant still
cannot change the task status.

**Steps to reproduce**

1. Create a task with an execution policy that has one `review` stage
with a native agent participant.
2. Move the task to `in_review` so the stage is pending and the reviewer
agent wakes.
3. In the reviewer run, call `PATCH /api/issues/{id}` with `{ "status":
"done", "comment": "Approved: ..." }`.
4. Observe `409 native_run_status_reported_by_finish`. Call
`paperclip_finish` with `done` and observe that the stage stays pending.

## What Changed

- `PATCH /api/issues/:id`: when the requester is the native run that
holds the task lock and is the active participant, a `status: "done"`
request on the final stage now records the approval decision
(`executionState` completed, decision row, activity). The route removes
`status` from the write, so the task stays `in_review` and the run keeps
its execution lock. The run's `paperclip_finish` report then sets `done`
through the normal status arbiter.
- An intermediate-stage approval (which would hand the task to the next
participant) and every other status change from such a run keep the
existing `native_run_status_reported_by_finish` refusal.
- `paperclip_finish` from the active participant (`done` or
`needs_review`) while its stage is still pending is now rejected with
the exact decision path, instead of being accepted with "stage still
pending".
- The native finalizer now treats the final-stage approval that the run
itself recorded (read from the `issue_execution_decisions` row, bound to
this run and agent) as the completion authority for its clean `done`
report. Before this, a reviewer that cited free-text evidence had its
report graded as incomplete, and the task was reopened as `in_progress`
with a new wake for the reviewer. Failed verification, blocking
remaining work, attention requests, other dispositions, and a
still-pending stage keep the old outcome.
- The reviewer/approver wake text names the decision path (`PATCH` with
`status` and a required decision comment) and says a completion report
does not record the decision. A Runner reviewer that needs changes is
told to report them with `paperclip_block`, because a changes request
from the run that owns the task is a reassignment that stops that run.
- The locked review-policy recheck treats the deferred approval as a
verdict, so a policy changed to `human_only` before the locked write
still refuses it.

## Verification

- `pnpm exec vitest run
server/src/__tests__/issue-agent-mutation-ownership-routes.test.ts
server/src/__tests__/issue-execution-policy-routes.test.ts
server/src/__tests__/issue-comment-reopen-routes.test.ts
server/src/__tests__/issue-execution-policy.test.ts
packages/adapter-utils/src/server-utils.test.ts`: 5 files, 595 tests
pass.
- `pnpm exec vitest run
server/src/services/native-runtime/native-completion-feedback.test.ts`:
29 tests pass (embedded PostgreSQL), including the decision-row binding
for `executionStageApprovedByRun`.
- `pnpm exec vitest run
server/src/services/native-runtime/status-arbiter.test.ts
server/src/services/native-runtime/native-run-finalizer-telemetry.test.ts
server/src/services/native-runtime/native-stale-owner-completion.test.ts`:
72 tests pass.
- New route tests fail without the route change (409 instead of 200/422)
and pass with it. The new feedback test fails without the feedback
change ("Completion report accepted" instead of a rejection).
- `npx tsc --noEmit -p server` and `-p packages/adapter-utils`: pass.
- A route test changes the review policy to `human_only` between the
first check and the locked write; the deferred approval is refused
(403).
- Live full-stack chat eval `task-coordination.independent-review`
(Runner, OpenCode) with this change: passed in GitHub Actions run
42705964209 (eval branch with the first two commits cherry-picked). The
reviewer run recorded its approval 24 s after its review brief was
released, reported `done` 14 s later, and the finalizer set the task to
`done` with reason `execution_stage_approved`; total reviewer run 73 s.
The earlier run 42702224713 exposed the finalizer evidence issue that
the second commit fixes.

## Risks

- Low to medium. The change is limited to one request shape: a native
run, holding the lock, that is the active participant of a pending final
stage, sending `status: "done"`. All other requests keep the old guard.
- Between the approval and the finish report, the task shows `in_review`
with a completed `executionState`. If the run fails before it reports,
the existing native recovery owns the task, as for any other run.
- Previous-release story: no persisted shape changes. A reviewer run
that started before the deploy could not have recorded a deferred
approval (the old route refused it), so the new finalizer input is false
for it and the old outcome applies.
- Intermediate-stage approvals and changes requests from native runs are
still refused by the route. A Runner reviewer reports required changes
with `paperclip_block`, which keeps the stage pending for a person. A
self-service changes request needs the deferred handoff semantics in
#20264.

## Model Used

- Anthropic Claude Opus 5.5 (`claude-opus-5-5`), tool use and code
execution in Claude Code.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 17:11:42 -06:00
DottaandClaude Opus 5.5 46ca7d4377 fix(api-search): stop function words from pushing case lookup off page one (#20382)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Chat and task agents find API operations with `search_api`, which
ranks the runner API catalog by word matches in each operation's method,
path and summary
> - The ranker scored function words such as "for", "the" and "of" like
resource words, so any summary that says "for" got 5 points for that
word alone
> - #20355 added two chat-bootstrap summaries that say "for up to ten
tasks" and "for one task". After that, the query "case for task" put
`GET /api/issues/{issueId}/cases` at rank 6, off the first page of 5
> - #20354 promised that agents find a task's case on the first search
page, and its test `case-history-api-discovery.test.ts` now fails on
master
> - This pull request stops the ranker from scoring function words, so
the resource words in the query decide the rank
> - The benefit is that master is green again and agents find the case
lookup (and other "X for an issue" reads) on the first page, whatever
new summaries say "for"

## Linked Issues or Issue Description

Refs #20354, #20355. Supersedes #19388 (the same ranker change, opened
earlier and not merged).

**What happened**
On a clean checkout of master at 0e3fdebea8 and later,
`server/src/__tests__/case-history-api-discovery.test.ts` fails:
"expected [ …(5) ] to include 'GET /api/issues/{issueId}/cases'".
`search_api` for "case for task" returns case handoffs, both
chat-bootstrap reads, task-drain, pending questions and privacy
constraints first. Most of these rank high only because their summaries
contain "for".

**Expected behavior**
An agent that searches "case for task" finds `GET
/api/issues/{issueId}/cases` on the first page. Words such as "for",
"an" and "the" do not change the rank.

**Steps to reproduce**
1. Check out master.
2. Run `cd server && npx vitest run
src/__tests__/case-history-api-discovery.test.ts`.
3. See the assertion failure for the "case for task" query.

## What Changed

- `server/src/services/native-runtime/runner-api-catalog.ts`: the search
tokenizer drops a small set of function words (`a`, `an`, `the`, `for`,
`of`, `to`, `in`, `on`, `at`, `by`, `with`, `and`, `or`, `from`) before
scoring. This applies to the query and to the catalog text.
- `server/src/services/native-runtime/runner-api.test.ts`: a regression
test. "list comments for an issue" returns the comments route first.
"queued comments", "activity", "runs" and "case for task" return their
routes on the first page. A query of only function words returns no
results.

## Verification

- Red on master before the change: `cd server && npx vitest run
src/__tests__/case-history-api-discovery.test.ts` fails (1 failed, 2
passed). Before the fix, the top 10 for "case for task" put the case
lookup at rank 6.
- Green after the change: `npx vitest run
src/__tests__/case-history-api-discovery.test.ts
src/services/native-runtime/runner-api.test.ts
src/__tests__/openapi-routes.test.ts
src/__tests__/agent-conversations.test.ts
src/__tests__/heartbeat-list.test.ts` passes.

## Risks

- Low risk. The change affects only `search_api` ranking. Exact
operationId lookup is unchanged. A query that has only function words
now returns no results instead of a list of arbitrary matches.
- Rank order can change for queries that used function words. The
existing ranking tests still pass.

## Model Used

- Anthropic Claude Opus 5.5 (`claude-opus-5-5`), agentic coding with
tool use (shell, file edits) in Claude Code.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 16:28:42 -06:00
DottaandClaude Opus 5.5 8a6b082274 fix(api): send call_api mutations once when responseText asks only for the first window (#20344)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Native agents use the `call_api` fallback tool for API operations
that have no dedicated tool.
> - `responseText` is an optional `call_api` argument. It returns a
bounded text window of a GET response.
> - The server rejects every `responseText` on a mutation, also a
first-window request that cannot repeat the mutation.
> - A native agent attached `responseText` to a company rename PATCH. It
got the same 400 on each retry, and no call succeeded.
> - The same call also had no `body`. A PATCH without a body changes
nothing, but the route returns 200. With the first rejection removed,
the agent could read that 200 as a completed rename.
> - This pull request sends a mutation once when `responseText` asks
only for the first window, and it rejects a PATCH without a body before
dispatch.
> - The benefit is that a valid mutation goes through on the first call,
a later-page request still cannot repeat a mutation, and an empty PATCH
cannot look like a successful update.

## Linked Issues or Issue Description

Refs #18105. That open pull request keeps the 400 for all mutation
`responseText` values and corrects its message. This pull request
changes the same check. It accepts a first-window request and keeps a
corrected 400 for a later page. Whichever pull request merges second
must resolve this line.

**What happened**

A chat agent (OpenCode, `deepseek-v4.1-flash`) tried to rename its
company with `call_api`. We recovered the exact arguments from the
payload digest in the run events: `operationId: "PATCH
/api/companies/{companyId}"`, `pathParams.companyId`, `query: {}` and
`responseText: { limitBytes: 8192 }`. There was no `body`. The OpenCode
MCP bridge validates the arguments with Ajv without `useDefaults`, and
`8192` is not a default in any schema. Thus the model, not the bridge,
sent `responseText`. The server returned "responseText requires a GET
operation". The agent sent the identical call 10 more times and one
identical branding PATCH. No call succeeded. A second chat case in the
same cohort sent `responseText` on `POST /api/issues/{id}/inbox-archive`
three times before it recovered.

**Expected behavior**

`responseText` with no offset or offset 0 changes only how the response
is shown. The mutation must run once and return its response on the
normal inline or saved-artifact path. A later page (`offsetBytes > 0`)
must still fail before dispatch, because it would repeat the mutation. A
PATCH without a body must fail before dispatch with a message that names
`body`, the allowed fields and the received argument keys.

**Steps to reproduce**

1. Call `executeRunnerApi` with `PATCH /api/companies/{companyId}`, a
body, and `responseText: { limitBytes: 8192 }`.
2. Before this change: a 400, and no HTTP request. After: one PATCH with
the body, and the normal response.
3. Call it with no body. Before: the request is sent and the route
returns 200 with no change. After: a 400 that names `body`, and no HTTP
request.

## What Changed

- `validateRunnerApiCall`: for a non-GET operation, drop a first-window
`responseText` (no offset or offset 0) and continue. A later page still
returns 400 with "This request was not sent" and the reason.
- New `assertRunnerApiDispatchable`: reject a new PATCH with a required
request body when `body` and `files` are both absent. The message lists
up to 12 allowed fields and the received argument keys. `call_api` runs
it inside its receipt reservation, after saved and inherited receipts
are read and before it writes a pending receipt, so a rejected call
leaves no receipt. `executeRunnerApi` also runs it for direct callers.
Recovery and receipt replay use only `validateRunnerApiCall`, so a
body-less PATCH that an older server completed still returns its saved
result.
- Tests: first-window `responseText` on a PATCH dispatches once with the
body (three window shapes). A later page is rejected with no dispatch. A
body-less PATCH is rejected with no dispatch, and `body: {}` is still
accepted. The catalog-wide dispatch tests now send `body: {}` for PATCH
operations with a required body.

## Verification

- Red: the 5 new or changed cases failed on `origin/master`
(`runner-api.test.ts`).
- Green: `npx vitest run src/services/native-runtime/runner-api.test.ts
src/services/native-runtime/runner-tool-results.test.ts` passed (2,087
tests). `tests/runner-e2e/api-response-reading.test.ts` passed (14
tests).
- `tsc --noEmit -p server/tsconfig.json`: no new errors. The error count
is the same before and after this change; the remaining errors come from
packages that are not built in this worktree.
- Upgrade safety and receipts: a new integration test seeds a completed
receipt for a body-less PATCH. `recover()` and a same-callId `execute()`
return the saved result. A new body-less PATCH is rejected twice with
the same error, writes no receipt and sends no HTTP request, and the
corrected PATCH with that callId then succeeds. The test failed with the
rule in `validateRunnerApiCall`, and again with the rule after the
reservation; it passes now. `runner-api.integration.test.ts`,
`runner-api.test.ts` and `native-case-tools.integration.test.ts` pass
(2,164 passed, 2 skipped).
- One paid chat eval run (GitHub Actions run 42680925312) with the first
commit cherry-picked onto the eval branch: `companies.rename-company`
passed. The agent sent one correct PATCH with a body, attributed to the
agent. That run did not send `responseText`, so it does not exercise the
changed path; the unit tests cover it.

## Risks

- Behavior change: a mutation with a first-window `responseText` now
runs. Before, it failed. The response comes back on the normal path
(inline up to 24 KiB, else a saved artifact), not as a text window.
- Behavior change: a caller that sent a PATCH with no body to a route
with a required body now gets a 400. Such a call changed nothing before.
POST, PUT and DELETE are not changed, because some of them have useful
empty bodies.
- No route, permission or company check changes.

## Model Used

- Anthropic Claude Opus 5.5 (`claude-opus-5-5`), with tool use and code
execution in Claude Code.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 14:03:08 -06:00
DottaandPaperclip 0e325e8d52 fix(runner): settle saved handoffs after verified shutdown (#20336)
## Thinking Path

> - Paperclip manages AI agents and their work.
> - An agent can save a question or approval handoff before its provider
stops.
> - A missing provider terminal notification does not prove that the
saved work failed.
> - Runner already verifies provider exit, event drain, tool settlement
and suspension.
> - This change uses that proof to settle the same saved handoff.
> - Unproven shutdown holds continuation and explains that the work is
saved.
> - Recovery must never repeat the completed work or allow overlapping
execution.

## Linked Issues or Issue Description

Refs #20330. That PR extends the Codex terminal drain window. This
change handles the separate case where no terminal arrives but the owned
shutdown can prove stopped execution.

**What happened?**

A native run saved a human handoff, accepted cancellation, and later
stopped its provider. The missing terminal notification still made the
attempt fail and show “Couldn’t finish this attempt.”

**Expected behavior**

Keep the saved handoff. Accept its yielded result after either an
authoritative provider terminal or verified shutdown of the exact
execution. If shutdown remains uncertain, retain the handoff and explain
the hold without offering a duplicate Retry.

**Steps to reproduce**

Save a governed wait, acknowledge interruption, and omit the provider
terminal. The new regression uses the real Runner binary and a
controlled Codex process. The old runtime rejects the handoff instead of
asking the existing shutdown owner to settle it.

**Deployment mode**

Native Runner with Codex. Local verification used macOS arm64 and Node
26.4.0. Hosted sandbox recovery has not been qualified.

## What Changed

- Add an optional driver shutdown-settlement operation. Runner returns
proof only after its existing stop, drain, tool settlement and
suspension barrier passes.
- Bind the receipt to the run, normalized session and turn. Persist it
with the saved wait and validate it during recovery.
- Complete the same yielded handoff after verified shutdown. Retire the
stopped session from warm reuse. Do not invent a provider terminal or
complete usage.
- Retain a named shutdown-pending condition under the existing bounded
same-run recovery policy. Preserve actual provider failures and
integrity failures.
- Show saved-work shutdown guidance in task and inbox presentation. Keep
genuine approvals authoritative and disable duplicate Retry.
- Document the completion and restart contract. The checkpoint field is
additive; older checkpoints retain the terminal-or-shutdown path.

## Verification

- Red: the new runtime regression failed against the original
implementation because verified shutdown was never requested. Server
presentation and error-classification regressions also failed before the
fix.
- Red: both inbox shutdown states showed generic text before the inbox
change.
- Green: Runner runtime, shutdown and harness-backend suites pass 301
tests. Tests cover missing terminals, failed stop proof, wrong identity,
cancellation, late proof, genuine provider failure, and restart after
receipt persistence. Recovery completes once without another model turn.
- Green: the native executor and task-presentation suites pass 1,371
tests. Execution projection, inbox and blocker presentation pass 125
tests. Two test-authoring mistakes were corrected: an integrity-error
text expectation and an assertion for a nonexistent projection field.
Their initial failures remain in local logs.
- Runner TypeScript and full server layered type checks pass. Token
gates and diff whitespace checks pass.
- Live provider acceptance: real Runner and Codex with gpt-6.1-sol, one
disposable local workspace, one tool call, and one deliberately dropped
terminal notification. The saved file, bound settlement receipt, one
accepted yielded result, one provider turn, confirmed provider exit and
suspended Runner all passed. The tool handler and persistence port were
controlled. This does not claim a full server or hosted journey.
- The full browser question-and-answer cell stopped before execution
because OPENAI_API_KEY was absent. No model work ran in that attempt.
Hosted sandbox recovery and the full browser continuation journey remain
unverified.
- `pnpm verify` returned exit 2 because the execution-spec change
requires broad CI. Required CI will supply that coverage; a full local
repository suite was not repeated.

- Review correction in `8553da244e`: a failed trailing-event write could
hide a provider failure. A new regression reproduced red, then passed
after all ordinary drain errors retained the named pending condition. No
settlement receipt or result can be accepted after that error. The live
missing-terminal check passed again on the corrected runtime.
- The real PostgreSQL control-plane regression and three existing
governed-wait controls pass. The new case persists one accepted yielded
result, a bound shutdown receipt, and the original pending human
question without a provider terminal.
- First CI revision `7c2cb9b1`: test-program typecheck found a missing
`PrpEvent` annotation in the new fixture. The annotation is fixed and
the Runner test-program typecheck passes. Runner support also timed out
in the unchanged `registered roots remain protected even when equal to
genuine public static bytes` case after 30 seconds. One unchanged local
diagnostic passed in 3.69 seconds overall. The hosted timeout cause
remains unknown; no timeout, fixture, or assertion was weakened.
[Original failed support
job](https://github.com/paperclipai/paperclip/actions/runs/42670851821/job/129346900133).

- Rebased onto the merged #20330 and current recovery changes. The
combined branch passes 1,402 executor/presentation tests. Both prompt
and 18-second provider terminals still pass. A warm session with no
terminal passes after the full 30-second drain and verified
stop/suspension. Its initial overly broad assertion rejected a
nonterminal turn event; the corrected assertion rejects every terminal
type. The rebased CI gate was cancelled before any runner or step
started; its cause is unconfirmed and it supplies no validation credit.
Final revision `b49ec5a144` starts fresh CI and review.

- Final-head CI attempt 1 failed before creating jobs. GitHub reports an
internal server error (correlation
`2c576b07-b67f-4179-a69f-74f7d99cd926`), followed by empty
runner-selection outputs for the aggregate jobs. One unchanged-commit
retry was requested; the initial admission failure remains recorded. [CI
run](https://github.com/paperclipai/paperclip/actions/runs/42673159868).

- **Current blocker:** final head
`b49ec5a144e94e41e96e2508a79bd9aec91fe45a` has a fresh 5/5 Greptile
review and zero unresolved threads, but required CI is not complete.
GitHub reports an active [Actions and Checks API
incident](https://www.githubstatus.com/incidents/tp8cghg7tlc4). Attempt
2 ran only part of the full selected graph. Build, canary, Rust, sandbox
providers, admitted browser shards and other completed test jobs passed.
The E2E aggregate correctly failed because `policy` and `e2e_shards` had
`abandoned` results. Server shard 5/12 received a runner shutdown signal
at 18:36:55 UTC and its test step was cancelled; its job still reports
in progress. The shutdown cause is not established. The separate review
workflow had the same pre-execution internal-error class and passed one
bounded retry. No further retry was submitted during the incident.
Resume with the missing/cancelled coverage after GitHub recovers; do not
count the absent typecheck, Runner or support jobs as passes. [Failed
coverage
gate](https://github.com/paperclipai/paperclip/actions/runs/42673159868/job/129354318236),
[interrupted server
shard](https://github.com/paperclipai/paperclip/actions/runs/42673159868/job/129350854174).

## Risks

- A missing terminal can use one additional bounded shutdown interval.
Unknown shutdown still blocks continuation.
- Provider terminal and usage accounting keep their separate meaning.
The receipt proves stopped execution and settled tool outcomes, not
model success.
- Recovery rejects a foreign receipt, a later turn, an active turn with
a settled receipt, and an actual failed provider terminal.
- There is no database migration. Older checkpoint shapes remain
readable. Drivers without this optional proof retain a named pending
state.
- This PR does not deploy the fix or repair an existing hosted task.

## Model Used

OpenAI Codex, GPT-6 family, with reasoning, repository tools and local
code execution. The exact serving model ID and context window are not
exposed in this session. Live test inference used gpt-6.1-sol.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-11-09 13:46:16 -06:00
Dotta 0eacad0d0c fix: refresh preserved harness receipt facts without copying archives (#20322)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - Volume-free deployment must preserve historical controller files
before removing the old disk.
> - A WEB preservation receipt binds an archive and source files to the
selected session and database facts.
> - Later metadata changes can make those facts stale while the
preserved files and archive remain unchanged.
> - The existing owner refuses every stale receipt, so preservation
cannot converge.
> - This pull request refreshes only facts freshness after it verifies
the same source bytes, checkpoints and archive.
> - Existing locks and an old-receipt digest comparison prevent a
concurrent replacement from being overwritten.

## Linked Issues or Issue Description

Refs #19814 for WEB evidence preservation without settling remote
recovery. Refs #19832 for bounded larger inventories. Related harness
receipt PRs were searched; no existing change provides this guarded
refresh.

**What happened?**

A valid WEB preservation receipt becomes stale after later run metadata
changes. Its original-volume owner refuses another preservation attempt
because an invalid receipt already exists. This leaves an eligibility
blocker even when the source and saved archive are unchanged.

**Expected behavior**

The original-volume owner can refresh stale facts only after it proves
every other persisted binding unchanged. It retains the prior receipt
and remote recovery state.

**Steps to reproduce**

1. Preserve a settled session's WEB files and controller evidence.
2. Add later run metadata so its database facts digest changes.
3. Preserve the same scope again. The previous implementation refuses at
the existing-receipt check.

**Paperclip version or commit**

The failure was reproduced on master
`12523fb677585fcd6da929f868014514a4e96e87`. This branch includes master
`1b7fe33432016b3b27ccdfbf7b8944da4b40726d`.

**Deployment mode**

Managed Linux server with PostgreSQL and durable object storage.

## What Changed

- Reuse the exact prior archive for existing WEB receipts. Recheck
current source bytes, controller history, checkpoint material and
archive bindings. Read back ciphertext and verify its size and hash.
- Permit only database/local-observation freshness changes. Selected
session, source run, controller, archive, WEB entries, and assets must
still match the prior proof. Local inode and timestamp observations may
change across attempts; preserved bytes, paths and modes must match.
- Recheck current facts and source files under the existing finalizer,
task and run fences. Accept a matching concurrent winner or require the
exact previous receipt digest before replacement.
- Retain the prior database and local facts digests, witness
fingerprint, observation time and receipt digest in the same
company-scoped activity transaction. Require those four fields to
reconstruct the exact prior proof from unchanged current bindings before
replacement. Normal audit redaction stays enabled.
- Preserve current-key checks and archive reads on ordinary idempotent
calls. Keep active-source, changed-evidence and cancellation refusals.
- Document the refresh contract. No schema, saved-run format or public
API change.

## Verification

- Genuine RED: the new real PostgreSQL/encrypted-archive case failed at
the old previous-invalid gate.
- Before the audit review follow-up, the full local owner suite passed
**94/94 integration cases in 50.01 seconds**. It covers same-archive
refresh with no PUT, audit history, current-key failures, unreadable
archives, cancellation, changed files, replaced volume, active sources,
matching concurrent winners and conflicting receipt replacement.
- The cases also cover a source becoming active during an idempotent
readback. Earlier 91- and 93-case runs preceded these final review
guards and are not the final result.
- Server typecheck, module boundaries and diff checks passed on the
final production/test bytes before the clean master merge. Required CI
supplies final-head breadth. Four narrow post-merge
refresh/current-key/idempotent regressions passed in 5.70 seconds on
`82e270f29fff98442c4184b96082f72f18a88721`.
- The fixtures use a real disposable PostgreSQL database and actual
local encrypted archives/storage. Controlled faults affect the stated
storage or concurrency boundary. They do not prove a hosted refresh or
archive plaintext cold restore.
- The existing integration file now exceeds 1,000 lines. Keeping these
cases with its private original-volume, controller, archive and
PostgreSQL fixture avoids duplicating that setup.
- Initial worktree preflight stalled on the global package-manager
wrapper. Preflight completed with the existing pinned toolchain. No
setup failure is counted as a product test pass.
- Review found that activity redaction could change a full prior-receipt
copy. A new regression enabled the real username censor and reproduced
that mismatch. The fix stores only the four changed scalar fields and
their original proof digest; a prepublication canonical reconstruction
guard rejects dropped or unknown fields.
- On the audit follow-up, 16 affected real PostgreSQL cases passed in
11.98 seconds; 80 unchanged cases were intentionally skipped. They
include real redaction with a username-containing WEB path,
reconstruction across two refreshes, unknown prior fields, CAS, active
sources, current-key failures, unavailable archives and cancellation.
Final server typecheck and boundaries passed. This was an intermediate
revision; the final-head results appear below.
- A second review found that comparing old inode/timestamp observations
also broke ordinary valid retries. Three real cases reproduced
valid-receipt touch/inode failures and stale-facts touch failure. The
fix permits metadata freshness changes across attempts while keeping
exact byte/path/mode/checkpoint/archive coverage and the existing locked
within-attempt metadata fence.
- Final local owner suite on the metadata follow-up: **102/102
integration cases passed in 44.04 seconds**, including valid
touch/new-inode retries, stale refresh with the same archive and no PUT,
four-scalar audit reconstruction, changed bytes/mode/entries, and a
touch during archive readback that must refuse. Server typecheck, module
boundaries and diff checks passed. The final-head CI and review results
appear below.
- Final head `c81475c927d0862dcb8d2c2356dc41ab4a27e63f`: [PR workflow
attempt
5](https://github.com/paperclipai/paperclip/actions/runs/42667287803/attempts/5)
completed successfully at 19:24:28 UTC on 2026-11-09. All 51 jobs are
accounted for: 49 passed and 2 were skipped. The actual [final ci /
verify](https://github.com/paperclipai/paperclip/actions/runs/42667287803/job/129382061558)
and [E2E
aggregate](https://github.com/paperclipai/paperclip/actions/runs/42667287803/job/129381486342)
passed. Typecheck, build and the selected test lanes passed. The
exact-head rollup is successful with no pending or failed checks.
- Attempt 5 resolved both trusted workflows to
`3a2f71db31aa99633610dc241f55f34ac65124de`, after #20339 merged. Its
routing gate passed and real jobs started. This verifies successful
startup and completion of this rerun; it does not exercise the
empty-runner fallback because routing succeeded.
- Earlier CI failures on `82e270f29fff98442c4184b96082f72f18a88721` and
attempts 1–4 of this final-head workflow remain nonpasses. Attempt 1 had
interrupted leaf jobs and failed aggregates. Attempts 2 and 3 ended in
workflow failure without a final verify job. Attempt 4 failed startup
with zero jobs and empty-runner errors. Those failures are not counted
as passes or labeled unrelated.
-
[Greptile](https://github.com/paperclipai/paperclip/pull/20322#issuecomment-6746395090)
and
[Ponytail](https://github.com/paperclipai/paperclip/pull/20322#issuecomment-6746327827)
reviewed the unchanged final head at **5/5**. Both historical review
threads are resolved; no inline thread remains open.
- Hosted application to an actual stale scope remains pending normal
release delivery.

## Risks

- Refresh must not bless different preservation evidence. The
unchanged-binding checks, fresh file and checkpoint proof, exact archive
reuse, source capability and locked receipt comparison remain mandatory.
- A fresh capability has a new witness fingerprint and expiry. The audit
retains the old fingerprint, database/local facts digests and
observation time. All unchanged proof bindings remain on the current
receipt. Their canonical reconstruction must match the old digest. The
new capability is validated at entry and publication.
- Readback verifies ciphertext size/hash and current-key checkpoint
material. This change does not claim a new archive GCM/plaintext
restore.
- Archive identity and rows remain unchanged, so retention ownership
does not change. Failed refreshes retain the previous receipt, original
files and unresolved remote recovery obligations.
- Older receipt shapes are not rewritten automatically. Normal
validation and named preservation refusals remain in force.

## Model Used

OpenAI Codex, GPT-6.1 Sol (`gpt-6.1-sol`), with reasoning, repository
tools and code execution. Context-window size is not exposed by the
runtime.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge
2026-11-09 13:26:27 -06:00
Dotta a3e7e63330 Guard Native recovery with process-space proof and explicit containment (#19813)
## Thinking Path

> - Paperclip manages agents and their work.
> - Recovery must preserve execution ownership and accepted results.
> - A saved PID proves nothing outside its recorded process namespace.
> - Uncertain unfinished work must stay held until its original owners
stop.
> - Operators need a source-bound containment action and a separate
ordinary Retry.
> - Accepted results must use the existing finalizer without another
provider turn.
> - This PR keeps those paths safe, recoverable, and quiet between real
obligations.

## Linked Issues or Issue Description

Refs: #19713

Refs: #19591

Recovery could use a local PID to release or replace a controller from
another process namespace. Connected-chat Retry also rejected successful
containment on a task in `todo`. The new containment action used a
broader permission than the existing owner-stop action. A later review
found that result-less guards also rejected the existing accepted-result
confirmation action.

## What Changed

- Record and verify the controller's kernel/PID namespace. Keep unknown
and foreign unfinished ownership held. Preserve independent durable stop
evidence and the existing remote lease fences.
- Use the shared accepted-result ownership reconciler. Bind settlement
to the observed lease token, generation, boot, PID, namespace and
process birth. Retain finalizer, cleanup, current-controller, live-owner
and remote exclusions.
- Share the remote-owner reader across recovery consumers. Scope runner
leases to the same company, task and run. Do not make local PID probes
for remote accepted-result ownership.
- Gate original-host containment on `runtime:confirm_owner_stop`. Bind
it to the current task, source, assignee, original expiry, lease and
Stop state. Audit separate controller/provider containment and reviewed
action outcomes.
- Keep containment separate from ordinary Retry. Use one canonical
committed receipt and the normal admission, budget, workspace and
lineage checks. Preserve the recorded external-action outcomes.
- Keep the controller-only confirmation actionable for both result-less
work and accepted results. Result-less work gets its next source-bound
attention in the same transaction. Accepted results keep their original
result and use normal shared settlement/finalization.
- Keep identity inspection quiet. Preserve the original foreign-owner
expiry and use the existing scoped finalizer in accepted-result recovery
controls.
- Update the recovery card, validators, execution projection, docs and
access maps. Reuse existing canonical columns; add no migration or
ownership backfill.

## Verification

Current publication head: `71ea76b568de09d6313d8992e803131d9d5c54f3`.

**The current fix has a causal red/green check.** On the test-only
revision, both foreign-local stopped/fenced controller cases failed
because recovery probed saved runner, process-group and provider PIDs in
this host's namespace. This measured the wrong probes; it did not run
duplicate providers. After the fix, the same two cases passed every
no-probe, no-claim, no-controller-stamp, no-stop-receipt and
unchanged-authority assertion. Three existing remote preparation, grace
and fenced-controller progress cases also passed. Total: **5 passed, 0
failed;170 filtered rows excluded**. All three normal affected App
TypeScript programs passed on this head (660,681 and428 roots).

The fix separates a controller wait from execution stop proof.
Independent live/grace evidence still schedules recovery. A
stopped/fenced foreign controller can pass this namespace guard only for
remote execution, which keeps its later checkpoint and never-launched
checks. Foreign local execution stays held before runner or provider PID
inspection.

Earlier source-scoped results remain evidence, not fresh executions on
the current head:

- On `c86dd741`, the complete failed-owner file passed **25/25**, with
no skips or filters. Empty scans wrote no controller stamps. Foreign
ownership kept its original expiry. Normal returned-claim settlement and
attention at the exact deadline passed.
- On `c86dd741`, **15 selected accepted-result/restart controls
passed**. The81 filtered rows are excluded. Both completion cases used
the existing scoped finalizer and kept their accepted result without
another provider turn.
- Trusted CI at synthetic merge `50d072a5` (actual master `1b7fe334`
plus `c86dd741`) passed the complete **17-case maintenance-server
file**. This includes the original90-real-second quiet observation and
two qualified hourly windows. The quiet case took118,918ms. The four
jobs that failed on the earlier publication all passed on that synthetic
merge.
- On `6243b32c`, the complete ownership-report file passed **29/29**.
Native NULL namespace stayed unprovable and generic compatibility
remained. Three selected recovery controls passed;170 filtered rows are
excluded.
- On `f81f2c3c`,356 business cases passed: whole ownership-route221,
recoveryUI70, owner-proof38 and controller-confirmation8; selected
accepted-result authority18; and one real connected-chat containment,
separate authorized Retry, useful Native result and downstream reply
case. The2,024 filtered rows are excluded. A separate earlier
accepted-result causal case kept the original result and completed after
restart without replay.

Normal Shared exports, App programs, UI typecheck, token gates and map
checks passed on their recorded revisions. Unchanged DB, adapter, Eval
and Runner inputs/outputs have explicit carry proofs. The clean normal
merge with fetched master `8fe524f7` preserves all31 exclusive owned
paths and14,827 unrelated master entries. The nine overlapping paths
were reviewed, including the upstream unidentified-run stop action.
Fresh CI must validate that actual merge composition.

PG cases used existing external PG17, fresh owned databases, pools at
most4, one worker and no SQL observer during cases. Registered clients
and recorded process groups closed. Independent final SQL audits found
zero campaign sessions before normal database cleanup. Original failing
fixtures remain retained.

Original failures are preserved. One new test first failed compilation
due to a missing getter import; an import-only correction passed its
full owning programs before the causal red/green check. A local quiet
attempt stopped in the normal prerequisite hook before any business case
and its collector rejected two normal build markers. The later17-case CI
pass establishes quiet recovery; it does not turn that failed local
collector into a pass. An earlier useful case passed before its private
cleanup collector failed on an owned read-only directory; normal cleanup
completed after all owners closed. Earlier runner-shutdown cancellation
and a separate private whole-suite failure remain unexplained.

Current-head checks are complete:57 success,1 neutral and3 skipped,
including the successful aggregate CI gate. The legacy status passed.
Greptile is5/5 and Ponytail gives an explicit5/5 Ship verdict for this
head. All seven review threads are resolved. Full recursive typecheck,
the full test suite and release build were not repeated locally. No
result here proves deployed suspension, a live provider or termination
on another host.

## Risks

- Unknown physical ownership can require an owner/admin action. A false
containment statement can be unsafe.
- New work, reassignment, Stop, renewed authority, accepted results or
pending cleanup can invalidate an action. The operator must refresh.
- Controller confirmation does not prove provider/tool containment.
Completed external actions must not be replayed.
- Generic legacy and child-process compatibility remains separate from
the strict Native controller policy.
- Existing saved state and canonical schema are preserved. Permanent
safety refusals remain held with their normal named recovery path.

## Model Used

OpenAI `gpt-6.1-sol` agents implemented and tested the changes with
reasoning, repository tools and code execution. A GPT-6-based Codex
managing agent reviewed and integrated them. The host does not expose
the manager's exact build or the context-window sizes.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` /
`Closes: #` / `Refs: #` OR (b) described the issue in-PR following the
relevant issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change and contains no internal
Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge
2026-11-09 12:06:11 -06:00
DottaandClaude Opus 5.5 365c771030 fix(chat): give project and workspace tool results their page links (#20324)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - People ask a chat agent to take them to a project or to the files of
a task
> - The agent finds the right project or workspace, but it cannot link
the page
> - The `list_projects` and `list_workspaces` tool results have no page
route, and the chat link guidance names no project or workspace format
> - The agent then writes a bare path or a shortened directory that the
person cannot open
> - This pull request adds the page `href` to these tool results and
adds the project link format to the chat guidance
> - The benefit is that chat replies give a clickable link to the real
project or workspace page

## Linked Issues or Issue Description

**What happened**
In chat, a person asked "Take me to the Launch project and show its open
tasks." The agent found the project. Its reasoning said "There's no
project page route documented explicitly". The reply wrote the project
as a bare path `/COM/projects/<id>`, which is not clickable. In a second
chat, a person asked where the files of a task are. The agent named the
correct workspace but gave a shortened directory and no link.

**Expected behavior**
The reply links the project page (`/<prefix>/projects/<id>`) and the
task's workspace page (`/<prefix>/execution-workspaces/<id>`) as
Markdown links, so the person can open them.

**Steps to reproduce**
1. Create a company with a project and a task that has a saved execution
workspace. Enable isolated workspaces.
2. In chat, ask the agent to take you to the project, or to say where
the task's files are.
3. Look at the reply. It has no project or workspace link.

Related: Refs #17985 (an earlier open PR that adds project and goal link
wording for newly created projects only). This PR covers project
discovery and workspaces and adds tool-result hrefs.

## What Changed

- `list_projects` rows now carry `href: /<prefix>/projects/<id>`. Both
the native runner tool authority and the MCP project-tools route pass
the company prefix.
- `get_workspace` and `list_workspaces` now carry `href:
/<prefix>/execution-workspaces/<id>`, only while isolated workspaces are
enabled. The workspace route redirects to the dashboard when the feature
is off, so no href is offered then.
- The chat link guidance (`AGENT_CHAT_DIRECTIVE`) adds the project link
format. It tells the agent to link a returned `href`, and to name a
workspace that has no `href` instead of linking it.
- Regression tests: guidance text against the registered UI route,
`callProjectTool` href, and an embedded-Postgres authority test for
project hrefs and the workspace flag on/off.

## Verification

- Red then green: the three new tests fail on `origin/master` source and
pass with this change.
- `npx vitest run` in `server/` for: `agent-conversations`,
`task-workspace-api`, `project-tools-pagination`,
`task-workspace-tools`, `chat-project-tools`, `dot-runner`,
`heartbeat-list` (prompt-size limits), `task-markdown`,
`muse-native-visibility`, `paperclip-runner-tool-authority`,
`runner-api`, `codex-local-execute`, `board-access-denial`. All pass.
- `npx tsc --noEmit -p server` passes.
- Live chat eval: see the comment on this PR for the paid runner E2E run
of `navigation-preferences.find-project-view` and
`workspaces.locate-files` with this change.

## Risks

- Low risk. The change adds one optional field to read-only tool
results. The output schemas allow extra fields.
- The guidance grows by two sentences. The prompt-size test in
`heartbeat-list.test.ts` passes.
- `list_projects` and the workspace tools now do one extra small read
(company prefix, and the instance experimental settings for workspaces).

## Model Used

- Anthropic Claude Opus 5.5 (`claude-opus-5-5`), agentic coding with
tool use and code execution.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 11:52:44 -06:00
Devin FoleyandPaperclip 0f84df91da fix(native): accept a completed child's file in the parent's completion report (#20325)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - In onboarding, the agent plans the user's first task, creates one
child task for the work, and waits for it
> - The `first-task` skill tells the agent to publish a requested file
on the child task. When the parent wakes, the agent links the child's
file and does not publish a copy
> - Native `register_deliverable` is bound to its current task, so the
parent cannot register the child's file again
> - The native completion check required each cited attachment to be on
the task being completed
> - So when the parent cited the child's download link,
`paperclip_finish` failed, and the agent reported the finished
onboarding task as blocked
> - This pull request lets a completion report cite an attachment on a
direct child task that is done
> - The benefit is that onboarding closes after its child task delivers
a file, and the user does not see a false "blocked" status

## Linked Issues or Issue Description

Related: #18258 (onboarding artifact completion instructions).

**What happened?**
An onboarding run created a child task to build and publish a project.
The child task registered `project.zip` with `register_deliverable` and
was marked done. The parent woke with reason `issue_children_completed`.
The agent called `paperclip_finish` with `reportedWorkDisposition:
"done"` and cited the child's `/api/attachments/<id>/content` link. The
call failed two times with:

```
Completion cites no registered attachment on this task. Use register_deliverable for the requested file and cite deliverable:<attachmentId> from its receipt.
```

The skill does not let the agent register the file on the parent, so the
agent called `paperclip_block` with "Paperclip completion validation" as
the owner. The parent task stayed `blocked`. Nothing wakes it again.

**Expected behavior**
The parent completes and links the child's file.

**Steps to reproduce**
1. Create a task with a child task.
2. In a native run on the child, register a file with
`register_deliverable`, and mark the child done.
3. In a native run on the parent, call `paperclip_finish` with
`reportedWorkDisposition: "done"` and the child's
`deliverable:<attachmentId>` or
`/api/attachments/<attachmentId>/content` as evidence.
4. The call fails with "Completion cites no registered attachment on
this task".

## What Changed

- `server/src/services/native-runtime/native-deliverable-feedback.ts`:
when a cited attachment is not on the task,
`validateNativeDeliverableEvidence` also looks for it on a direct child
task with status `done`. If it is there, the citation is accepted.
- The child's file is context, the same as an attachment from an earlier
run on the same task. It does not count as this run's publication of a
file that the parent's own request names.
- With `lockSources`, the finalization path locks the attachment and
child task rows with `FOR SHARE NOWAIT`, as it does for other sources.
  - The error text now says "on this task or its completed child tasks".
- This applies to the `paperclip_finish` check and to the two
finalization checks, because they use the same function.
- `doc/AGENT-ARTIFACTS.md`: the native runner section states that a
completion report can cite a file on a completed direct child task.

## Verification

- Extended "prepares one verified same-run attachment and replays
without duplicates" in
`server/src/services/native-runtime/native-runner-file-handoff.test.ts`:
  - An attachment on an unrelated task is still rejected.
  - An attachment on a child task that is not done is still rejected.
- An attachment on a done child task is accepted, through
`paperclip_finish` and through the locked finalization path.
- When the parent's own request names a file, the child's file alone
does not satisfy it.
- Without the source change, the test fails with the same error as the
run above.
- `npx vitest run` on `chat-attachment-reuse`,
`native-completion-feedback`, `native-completion-format-feedback`,
`native-deliverable-feedback`, and `native-runner-file-handoff` tests in
`server/src/services/native-runtime`: 281 passed.
- `npx vitest run src/__tests__/native-result-commit-work.test.ts
src/__tests__/native-status-arbiter-corpus.test.ts` in `server`: 167
passed.
- `npx tsc --noEmit -p server/tsconfig.json` passes.

## Risks

- Only direct children with status `done` are accepted. A grandchild's
file, or a file on a child that is not done, is still rejected.
- A parent that names a requested file in its own request still needs
its own delivery evidence. This keeps the current rule for earlier
outputs.
- A task that is already blocked by this error does not change. The user
can mark it done, or comment so the agent runs again.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), Anthropic, used through Claude
Code with tool use (code reading, database queries, shell commands, and
test runs).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-11-09 09:44:17 -08:00
DottaandClaude Opus 5.5 8fe524f796 fix(issues): let the board confirm an unidentified run stopped instead of an endless Retry wait (#20310)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Before a new attempt can start on a task, Paperclip must prove the
previous run's agent stopped, so two agents never work the same task at
once
> - A local native run can be interrupted after it asked to start the
runner but before it recorded the runner's process. The runner may have
saved state and started a provider, and provider processes can outlive
it, so the existing check (#19694) rightly refuses to assume the run
stopped
> - Today that case has no way out: every Retry is accepted and then
waits forever as `process_identity_missing` (storage chaos ST1, t02/t03)
> - This pull request makes the wait explicit and actionable. The task
explains why it waits, and a board operator who has checked can confirm
the run stopped; the parked Retry then starts at the click
> - A second shape from the Daytona storage baseline (t06) parked a
Retry with no reason at all: a follow-up was interrupted by a graceful
shutdown while it was still restoring its workspace. No provider ran,
but the restore hold kept the same agent held, so the Retry never
started
> - The benefit is that no Retry stays accepted-and-waiting with nothing
anyone can do

## Linked Issues or Issue Description

Refs #19831. Storage chaos wave `w-20261109T145628-s9902` (ST1), tasks
t02 and t03.

**What happened (CHA-3, run `3c3f6241`):**
- The run requested a runner launch (`native.process_start_requested`),
and a K2 restart hit before its process identity was recorded.
- After the restart, the resumed attempt failed on the storage outage.
The task was blocked.
- The board's Retry (202) was parked as `executionWait.reason =
process_identity_missing`: "The previous run has no verified stop
record."
- `recordUnidentifiedLocalRunnerStop` cannot prove the stop because this
run's runner saved control-plane state. Once that exists, a provider may
have started (#19694), and a provider is not guaranteed to carry
`--run-id` or `PAPERCLIP_RUN_ID` (the Codex provider env omits it on
purpose). The shared owner prover needs a PID, which the run never
recorded.
- Nothing could ever clear the wait.

**Daytona storage baseline `w-20261109T154810-s9911`, task t06:**
- The run succeeded. The follow-up was cancelled
(`continuation_task_ownership_changed`), and the next run was
interrupted by a graceful shutdown (`server_shutdown_interrupted`) 3 s
into `preparing`. It was restoring the saved remote workspace and had
launched no provider.
- Restore recovery saved the files (`workspaceRecovery.status:
recovered`, system recovery `complete`). But the
`legacy_execution_requires_reconciliation` restore hold releases only
for a different owner, or for a native Stop fenced before any provider
turn, so it kept the same agent held.
- The UI Retry returned 202 and parked with `executionWait.reason:
execution_recovery`, the generic wait, so the task showed a Retry that
never started.

Automatic proof needs the runner to record its identity before saving
state and to group provider processes under it. That is follow-up runner
work; this PR removes the endless wait now.

## What Changed

- `server/src/services/native-local-process-stop.ts`: new
`confirmUnidentifiedLocalRunnerStopped`. It accepts only a finished
native run of the task with no recorded process and whose latest launch
evidence is an unconfirmed launch on this host in a local environment.
It still refuses while a runner with `--run-id <run>` is running. It
records `native.local_process_stopped` with `basis: "operator_attested"`
and the attesting user. That is the receipt the existing continuation
gate already accepts.
- `server/src/routes/issues.ts`: `POST
/issues/:id/recovery-actions/confirm-run-stopped` (`runId`,
`stopEvidence` of 20 to 12,000 characters). It is board-only and
requires issue read plus `runtime:confirm_owner_stop`, like the other
stop attestations. It logs `issue.run_stop_confirmed` with the evidence,
promotes deferred intents for the issue, and resumes each parked task
Retry, so work starts at the click. Refusals return 409 with a code.
- `packages/shared`: `confirmRunStoppedSchema`, and the presentation
user action `confirm_run_stopped`.
- `server/src/services/task-interruption-presentation.ts`: a Retry
parked as `process_identity_missing` for a native run that recorded no
process now presents as waiting for the user (`canRetry: false`,
`userAction: "confirm_run_stopped"`), with a message explaining why and
who can act. A run with a recorded process keeps the existing
verification wait.
- UI:
- `ExecutionBlockerNotice` shows the explanation and, for users who can
confirm a stop, "Confirm it stopped" with a short evidence form.
- It reuses `PreviousServerStopConfirmation`, now with optional
`action`, explicit `runId` and `formId`, and a custom button label.
  - The Inbox names the action.

- `server/src/services/execution-blocker.ts`:
`interruptedPreparationBeforeProviderWorkCondition`. The restore hold
also releases for the same agent when the stopped run was a
system-interrupted preparation (legacy runtime never resolved, still
`preparing`) with no process identity, no runner or provider events, no
finalization or result, and every lease released with a confirmed stop.
It mirrors the existing interrupted-preparation proof and still requires
the completed workspace-recovery receipt. Auto-replay is unchanged; this
only lets the user's Retry or message start.
- Review fixes:
- `unidentifiedLocalLaunchRefusal` holds the endpoint's launch, host and
lease checks, and the presentation offers `confirm_run_stopped` only
when it passes.
  - The attested stop wakes cost accounting in the same transaction.
  - The confirmation form is keyed by task and run.
  - The route is registered in OpenAPI.

## Verification

Red/green (each new test fails against master and passes with this PR):
- `server/src/__tests__/issue-confirm-run-stopped-routes.test.ts`:
- The parked Retry presents `confirm_run_stopped` with the explanation.
- Confirming records the operator-attested stop and the activity entry,
satisfies the stop check, and resumes the parked Retry: its receipt is
coalesced into a newly started run.
  - It refuses with 409 while a runner for the run is running.
  - Agents and viewers get 403.
-
`ui/src/components/ExecutionBlockerNotice.confirm-run-stopped.test.tsx`:
the notice offers "Confirm it stopped" (and no dead Retry) and posts the
run and evidence. A viewer sees the explanation without the action.

- `server/src/__tests__/interrupted-preparation-restore-retry.test.ts`
(t06 shape):
  - The restore hold no longer blocks.
- A Retry is accepted and resumed into a started run, and the audit hold
keeps `replay: blocked`.
- The hold stays when a provider turn started, when a runner event was
recorded, when an operator stopped the run, or when the sandbox has no
stop receipt.
- `issue-confirm-run-stopped-routes.test.ts`:
- A case per refusal code checks the presentation keeps the generic wait
and the endpoint returns 409.
  - An `alreadyStopped` case.
  - An accounting-wake assertion.
- The UI test switches targets with stale evidence.

Regression and static checks:
- `ExecutionBlockerNotice`, `WorkspaceExportRecovery` and its control
tests: 74 passed.
- `tsc --noEmit` passes for `packages/shared`, `server` and `ui/src`.
`pnpm check:token-gates` is clean.

## Risks

- A board operator can now attest that an unidentified run stopped. The
attestation is permission-gated, requires written evidence, is
activity-logged, and is refused while a runner for the run is visibly
running. A wrong attestation could start a second agent beside an
orphaned provider, the same trust model as the existing previous-server
attestations.
- The confirmation component now accepts a run without a recovery
action. Existing callers pass the action as before.
- No schema migration.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), Anthropic, via Claude Code with
tool use (shell, file edits).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 11:36:41 -06:00
DottaandClaude Opus 5.5 2dd7a98753 fix(recovery): return a settled restore hold's warm sandbox to reuse (#20278)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Recovery tells a waiting parent or dependent when a child or blocker
stalls on the board (`issue_blocker_stalled`)
> - A legacy child that an older release bound to its parent's remote
workspace failed its save, and its save recovery was exhausted. Its
ended run still holds the shared workspace, days past the one-hour
holder cutoff
> - Workspace reservation refuses a run on such a hold and fails setup
with "The workspace still has an unfinished writer or save operation."
Every stall wake of the parent created a run that could only fail this
way
> - The stall sweep treated each failed run as an undelivered wake and
retried it every ten minutes, with no backoff and no limit. On staging
this made 72 failed runs (58 of 60 failures since a deploy), in pairs
every ten minutes
> - This pull request makes the stall sweep hold a wake while the
waiter's workspace hold refuses a run, and bounds retries of a wake
whose run fails
> - The benefit is that a held workspace no longer produces a failed run
every ten minutes, and the wake still arrives once the hold settles

## Linked Issues or Issue Description

**What happened?**
A parent task was woken by `issue_blocker_stalled` twice every ten
minutes. Each run failed in setup (`setup_failed`,
`executionRecovery.kind=bootstrap`, `providerWorkStarted=false`) with
"The workspace still has an unfinished writer or save operation." The
parent's remote workspace was held by a child's ended writer run whose
save recovery was exhausted
(`native_workspace_sync_out_retry_exhausted`, last failure
`agent_stop_unconfirmed`). The child shared the parent's workspace
because an older release created it before subtasks got their own
workspace (#19860).

**Expected behavior**
A wake that cannot start because its workspace is held must not create a
failed run every time. It should wait until the hold settles. Automatic
retries must be bounded.

**Root cause**
- `server/src/services/heartbeat/workspace-preparation.ts` rethrows
`RemoteWorkspaceWriterActiveError` as a setup failure when the ended
writer is silent past `WORKSPACE_BUSY_HOLDER_STALE_AFTER_MS`
(documented, intended).
- `server/src/services/recovery/blocker-stall-wakeups.ts` retried every
non-delivered wake row (including `failed`) after
`REFUSED_WAKE_RETRY_MS` (10 minutes) with no backoff and no limit, and
it did not check whether the waiter could start at all.

## What Changed

- `remote-workspace-writer-hold.ts`: add
`remoteWorkspaceHoldRefusesStart`, the one rule for a hold that
reservation refuses outright (unattributed writer, or a writer silent
past the cutoff with no live owner fence).
- `workspace-preparation.ts`: use that rule instead of an inline copy,
so reservation and wake senders cannot drift.
- `blocker-stall-wakeups.ts`: before waking a waiter, read its bound
remote workspace hold. When the hold refuses a run, do not wake it;
count it as deferred and re-check at most hourly. A workspace with an
unchanged-release baseline is left to reservation, which can release it.
- `blocker-stall-wakeups.ts`: a stall wake whose run failed is retried
after 10, then 20 minutes, and not after the third failed run. Refusals
(wake-on-demand off, agent paused) keep the 10-minute retry. A new stall
(new recovery action) wakes again.
- `doc/execution-semantics.md`: document both rules.

## Verification

- Red before the fix
(`server/src/__tests__/issue-blocker-stall-wakeups.test.ts`): 3 new
tests failed. The held-workspace test got a delivered wake; the backoff
test got a third wake 11 minutes after the second failure.
- Green after the fix: `npx vitest run
src/__tests__/issue-blocker-stall-wakeups.test.ts` passes 20/20.
- The new tests use the staging shape: a legacy `shared_workspace`
remote workspace owned by the parent, a child bound to it, the child's
failed native writer run ended four days ago with
`native_workspace_sync_out_retry_exhausted`, a dirty authority, and the
child's board-owned exhausted recovery action. They also prove that a
writer inside the cutoff still gets its wake (the run parks in a
workspace wait), and that the wake is delivered once the hold settles.
- Related suites pass: `heartbeat-remote-workspace-busy.test.ts`,
`heartbeat-dependency-scheduling.test.ts`,
`native-cancelled-workspace-preservation.test.ts`,
`src/modules/run-dispatch`.
- `npx tsc --noEmit -p server` passes.
- `pnpm verify` exits 2 because `doc/execution-semantics.md` is a global
CI input; required CI supplies the broad coverage.

## Risks

- Low. No schema or persisted-shape change. Saved state from the
previous release (existing wake rows, existing workspace authority) is
read as-is: earlier `failed` stall wake rows count toward the new
three-run limit, which stops the current loop at once after deploy.
- A parent whose workspace stays held is not woken for the stall until
the hold settles. The stall is still listed on its page and the child's
recovery action stays with the board.
- Not fixed here: the exhausted save hold itself is never settled
automatically (`agent_stop_unconfirmed` exhaustion in workspace
recovery), and legacy children that still share a parent's workspace are
not moved. Both touch workspace recovery code that is under concurrent
change and are left for a follow-up.

> For core feature work, check [`ROADMAP.md`](ROADMAP.md) first and
discuss it in `#dev` before opening the PR. Feature PRs that overlap
with planned core work may need to be redirected — check the roadmap
first. See `CONTRIBUTING.md`.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), Anthropic, used through Claude
Code with tool use (shell, file edits, browser read-only inspection of
staging).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 08:28:04 -06:00
DottaandClaude Opus 5.5 6459488984 fix(native): open a remote replacement as a new runner after archiving the reattached one (#20242)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - After a restart, a remote (Daytona) run can resume by reattaching to
its surviving sandbox runner. If provider recovery fails and the
checkpoint allows it, the run opens a replacement provider session
instead.
> - Before a replacement, the executor archives the local controller
state and the remote session root as a continuity break, then opens a
new session.
> - On a reattach backend, the replacement still adopted the archived
runner and asked for its old authority, so it failed. The archive had
already moved the remote state, so the next retry could not verify the
runner and the issue waited 17 minutes on an unconfirmed stop.
> - Review showed that a reattach backend fixes many launch inputs once
at creation (runner binary, provider pack and companions, artifacts,
live-recovery mode, authority, spawn barrier), so resetting them after
the archive does not scale.
> - This pull request builds the replacement on a new backend for the
same run, created under a `bootstrap_incomplete` claim after the
archive, so every launch input resolves through the ordinary fresh path.
> - The benefit is that a failed reattach after a restart falls back to
a working replacement instead of a stuck issue.

## Linked Issues or Issue Description

**What happened?**
In restart-chaos Daytona K13 storm wave seed 9503, task t36 graded R1
(no rest within budget). A K2 drain suspended run a53dd948's sandbox
runner (pid 589) during startup. On restart the run claimed
`reattach_remote_runner`. The adopted runner authenticated and restored,
then its connection closed, and provider recovery failed. The runtime
opened a replacement: `provider.session.archive_before_replacement`
archived the local and remote state, then the replacement failed with
"PRP provider resume state is unavailable". The same-run retry at
10:25:50 then failed with `runner_remote_state_unavailable: exit=1` (the
remote `runner-state.json` had moved), and file preservation deferred on
`agent_stop_unconfirmed` until the wave ended.

**Expected behavior**
After the continuity archive, the replacement opens a new runner for
this run, as it does for every other claim kind.

**Steps to reproduce**
1. Run a remote (Daytona) native run and restart the server so the run
claims `reattach_remote_runner`.
2. Make provider recovery fail on the adopted runner with a checkpoint
that allows replacement.
3. See the replacement open on the adopted runner's authority and fail
after the archive.

**Paperclip version or commit**
master at 465da4227a

## What Changed

- `native-session-executor.ts` `openReplacementSession`, on a
`reattach_remote_runner` backend: archives the continuity state (local
and remote, as before), then calls
`createRunnerdBackendWithinSessionClaim` for the same run with the claim
re-kinded to `bootstrap_incomplete` (minus `remote` and
`stagedAttachment`) and without warm recovery, and opens the replacement
on that backend. Root migration then quarantines the empty archived root
(the #20241 rule) and every launch input resolves fresh.
- A backend that adopts only through warm recovery (no claim to re-kind)
throws `native_runner_replacement_requires_fresh_launch` **before**
archiving, so its saved state stays intact.
- Tests: a classic Daytona reattach backend for `codex` and `acpx`
(Claude). The replacement comes from a second backend: the original
backend's `openSession` is never called, and the new transport has no
adopted runner, uses `turn-<runId>`/`item-<runId>`, has a new
still-pending spawn barrier, and (for `acpx`) carries the packaged
provider paths. The bundled-image replacement test now expects a new
backend and its own pack admission, not the recovered session's cold
admission.

## Verification

- Red before the fix: both new replacement tests fail on master. They
pass with the fix.
- `native-session-executor.test.ts`,
`native-recovered-owner-followup.test.ts`,
`native-harness-filesystem-independence-continuation.integration.test.ts`:
1,398 passed.
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck` in `server`: passes.

## Risks

- Medium. The replacement now constructs a second backend inside the
same session claim. The new backend's tool-authority epoch supersedes
the reattach backend's, which is being abandoned anyway.
- A warm-recovery-only replacement now fails with a named error instead
of archiving and then failing. Its saved state stays intact for the next
recovery.
- Previous-release story: no saved state or schema changes.
- Not covered: why provider recovery on the suspended, adopted runner
failed in t36 in the first place. This PR makes the fallback work.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), Anthropic, via Claude Code with
tool use and code execution.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 08:12:24 -06:00
DottaandClaude Opus 5.5 2b461b2f58 fix(native): require publication for files named under a Deliverable label (#20231)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Native agents finish a task with a completion report, and a server
gate checks that requested files are published to the task
> - The gate finds a file request only from a creation verb, such as
"Write report.pdf"
> - Delegated briefs often list the output under a "Deliverable:" label
instead, and the gate did not know `.html` or `.css` names
> - So a worker can finish a website task with `index.html` only in its
own workspace, and the person cannot open it
> - This pull request makes a file named under a Deliverable label a
requested file output
> - The benefit is that the worker gets the existing "use
register_deliverable" feedback before the task closes

## Linked Issues or Issue Description

No public issue exists. Bug description:

**What happened**
A person asked the CEO: "Make me a simple website introducing our
business." The CEO delegated a task. Its brief said "Deliverable: - A
self-contained static website in this task's workspace: index.html plus
a stylesheet (for example styles.css)". The worker wrote `index.html`
and `styles.css` in its workspace. It did not call
`register_deliverable`. It cited `index.html` and `styles.css` as
completion evidence, and the gate accepted the report. The task was
marked done with no attachment. The CEO then told the person that the
files were "in the task workspace".

**Expected behavior**
A brief that names a file as its deliverable is a file request. The
completion gate must reject a workspace-only file and tell the worker to
publish it with `register_deliverable`.

**Steps to reproduce**
1. Call `explicitlyRequestsFileOutput` with the brief above.
2. See that it returns `false`, so `validateNativeDeliverableEvidence`
accepts the bare `index.html` evidence ref.

## What Changed

- `explicitlyRequestsFileOutput` now also returns true when a
`Deliverable:` / `Deliverables` label line (plain, bold or heading), or
a bullet or numbered item in the list below it (blank lines between
items allowed), names a file. Relative paths such as `dist/index.html`
count.
- Under the label, web page files (`.html`, `.htm`, `.css`) count with
the existing file types.
- Items that name an input ("a summary of input.csv", "a comparison of
input.csv and baseline.csv"), describe a repository change, pull
request, commit or branch, forbid the named file (`do not create
report.pdf`), name a file to edit in place (`update styles.css`) without
asking to publish it, send the file inline (`index.html and styles.css
inline in the reply`), or forbid creating files, do not count. An inline
or no-upload instruction about another output in the same item
(`index.html and a short summary in the reply`, `index.html; do not
upload it externally`) does not cancel the named file. The
repository-change check ignores file names, so `branch-report.pdf` still
counts.
- The sentence-based detector is unchanged.
- `doc/AGENT-ARTIFACTS.md` describes the label rule.

## Verification

- `cd server && npx vitest run
src/services/native-runtime/native-deliverable-feedback.test.ts
src/services/native-runtime/native-runner-file-handoff.test.ts` (197
pass), then after the review fixes
`native-deliverable-feedback.test.ts`,
`native-completion-format-feedback.test.ts` and
`chat-attachment-reuse.test.ts` (211 pass). The 13 first-round review
cases fail on the original head.
- New cases: the real delegated brief, inline labels, heading lists,
numbered lists and bold labels require publication. Unlabelled text,
inline-chat deliverables, input references, repository changes, text
after the list ends, and "Deliverable quality ..." prose do not.
- The chat eval `onboarding.first-work` exercises this path end to end
on its candidate branch.

## Risks

- Low risk. The change only adds a true result for labelled file
outputs; an inline-only or no-file label item stays false, as the
sentence detector already decided.
- A labelled brief that names a file which is not a repository change
now needs `register_deliverable` or an accessible work product. That is
the documented delivery rule.

## Model Used

- Anthropic Claude Opus 5.5 (`claude-opus-5-5`), tool use and code
execution in Claude Code.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 07:15:11 -06:00
DottaandClaude Opus 5.5 68253e3175 fix(recovery): continue a run refused by an inert cleanup quarantine with no click (#20260)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - When a native session's cleanup fails unrecoverably, the runtime
quarantines it in process. The next run for that task is refused with
`native_session_cleanup_quarantined`.
> - A board Retry or a new message already recovers from this.
`verifyStoppedNativeSessionForContinuation` proves that the old runner
and providers stopped, releases the quarantine and starts a fresh
session.
> - Without a click nothing recovers. The automatic safe-replacement
sweep proves stopped sessions only with the Codex replacement verifier,
which needs the failed run's own active turn. A run refused before
launch never has one, so the sweep skips it on every pass.
> - Restarts must recover on their own. This pull request lets the sweep
use the same continuation proof for a cleanup-quarantined run.
> - The benefit is that an inert quarantine turns into a fresh-session
continuation with no click, and an unproven one still keeps its board
Retry.

## Linked Issues or Issue Description

**What happened?**
In restart-chaos wave seed 9802 (local, G1, Claude), task t02's run
71f03e16 succeeded, but its runner cleanup could not prove it drained
and was quarantined. Follow-up run 0b4b404f was refused before launch
with `native_session_cleanup_quarantined`, and the task showed
"Automatic recovery stopped" until someone pressed Retry.

**Expected behavior**
When the quarantined session's owner run and every provider process are
proven stopped, recovery continues the task by itself in a fresh
session, without charging an attempt. When that cannot be proven, the
board Retry stays available.

**Steps to reproduce**
1. Have a native run succeed while its runner cleanup is quarantined.
2. Let the next run for the task be refused with
`native_session_cleanup_quarantined` before it launches.
3. Stop the old runner and provider processes, then run the
safe-replacement sweep. No successor is created.

**Paperclip version or commit**
master at 8eb11fa8aa

## What Changed

- `native-session-executor.ts`: new
`verifyStoppedNativeSessionForAutomaticReplacement`. It returns the
existing replacement proof, or, for a
`native_session_cleanup_quarantined` run with no replacement proof, the
continuation proof that the board Retry already uses (Codex and ACPX,
including an inherited owner run).
- `server/src/index.ts`: the safe-replacement sweep uses that verifier.
- The existing sweep then retires the quarantine, records
`native.stopped_text_turn_verified` and queues a successor with
`forceFreshSession: true` at the failed run's attempt number, so no
attempt is charged.
- `quarantined-task-retry.test.ts`: "recovers a quarantined $provider
source that never launched with no click…" for Codex and ACPX (Claude).
A stopped owner makes the sweep queue one fresh-session successor at the
same attempt. A running owner (Codex) or a live ACPX agent process
queues nothing and leaves the board Retry in place.

## Verification

- Red before the fix: with the replacement-only proof, the stopped case
queues no successor. It passes with the fallback, and the running-owner
case passes on both.
- `quarantined-task-retry` (35), `native-safe-replacement`,
`native-replacement-evidence`: pass.
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck` in `server`: passes.

## Risks

- Low to medium. The fallback applies only to
`native_session_cleanup_quarantined` runs. It uses the stricter
continuation proof that already gates the board Retry: owner run
settled, local leases released, runner and every recorded provider pid
absent, and an unchanged retained state. The sweep keeps every other
gate (task ownership, failure-block receipt, attempt limit, effect
inventory).
- Previous-release story: no schema or saved-state change.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), Anthropic, via Claude Code with
tool use and code execution.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 07:12:07 -06:00
DottaandClaude Opus 5.5 3374ca54f5 fix(runner): record a runner exit mid-turn as runner loss, and stop the lineage sampler panicking (#20259)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - The native runner (`runnerd`) runs each provider turn, and the
server records why a run stopped and what the person can do next
> - When `runnerd` exits during a provider turn, the server saved the
run as `native_provider_terminal_failed`: "The provider session is
permanently unusable", with automatic retries stopped
> - The real cause was the runner process, and the transport already
names it (`native_runner_process_exited`) at the start of the
closed-stream message
> - Separately, the process-lineage sampler added in #19727 panicked on
Linux debug builds when a provider tool started its own session, and
that panic text became the run's visible failure
> - This pull request records a runner exit mid-turn as runner loss, and
reads session IDs without the assertion that panicked
> - The benefit is that a person sees the true cause of a stopped run,
and recovery treats a lost runner like every other runner exit

## Linked Issues or Issue Description

Refs #19727

**What happened**

A chat eval killed only the owned `runnerd` process (SIGKILL) while a
provider tool was running. The run failed with `errorCode:
native_provider_terminal_failed` and the next action "The provider
session is permanently unusable". The error text was `Notification
transport failed closed: native_runner_process_exited: runnerd exited
unexpectedly: paperclip-runnerd panic: panicked at
rustix-1.1.4/src/pid.rs:61:9: assertion failed: raw > 0`. The panic came
from the lineage sampler thread before the kill. It called
`rustix::process::getsid`, which asserts a nonzero session. A kernel
thread, or a process whose session leader is outside the PID namespace,
reports session 0.

**Expected behavior**

A runner process exit is recorded as `native_runner_process_exited`, the
same cause the server already uses for a runner exit outside a turn.
Recovery then applies its normal runner-loss rules (checkpoint evidence,
bounded attempts, cleanup quarantine). The lineage sampler does not
panic, and its diagnostics do not replace the real failure text.

**Steps to reproduce**

1. Start a native OpenCode run on Linux with a debug `runnerd`.
2. Let the agent run a shell tool that starts its own session (for
example a long `node -e` command).
3. Send SIGKILL to the `runnerd` PID only.
4. Read `GET /api/heartbeat-runs/<runId>`: `errorCode` is
`native_provider_terminal_failed` and the error names the rustix panic.

## What Changed

- `nativeSessionFailureSourceCode` returns
`native_runner_process_exited` for a `NativeProviderTerminalFailure`
with code `notification_transport_failed` when its message starts with
`Notification transport failed closed: native_runner_process_exited: `.
Only the runner transport writes that prefix. Other closed-stream causes
stay `native_provider_terminal_failed`.
- `paperclip-process-table` has a new `session(pid)` function. Linux
reads the session field of `/proc/<pid>/stat`. macOS calls `getsid`. A
session of 0 or an error gives `None`.
- `process_lineage` reads sessions through
`paperclip_process_table::session` instead of rustix `getsid`.
- Regression tests: the runner-loss classification (attempts 1 and 3,
and three negative shapes), the stat session parser with a kernel-thread
line, and a live read of this process's session.

## Verification

- `cd server && npx vitest run
src/services/native-runtime/native-session-executor.test.ts -t "runner
process exit that closed|preserves stable provider and runner|model
rejection from a provider terminal|operator-owned through terminal"` (8
passed)
- `cd packages/paperclip-runner/runner && cargo test -p
paperclip-process-table` (macOS: 3 passed; the Linux-only parser tests
run in CI)
- `cd packages/paperclip-runner/runner && cargo test -p
paperclip-runner-core --lib process_lineage` (6 passed)
- End to end: the `recovery.*` chat eval cells that kill `runnerd` are
run against this change on a separate eval branch.

## Risks

- Behavior shift: a runner exit during a turn now follows runner-loss
recovery instead of stopping as a permanent provider failure. Recovery
still decides from durable evidence. Ambiguous state stays terminal, and
an unverified cleanup stays quarantined.
- Previous-release story: no persisted shape changes. Runs saved earlier
with `native_provider_terminal_failed` keep that code. Only new failures
are classified with the new rule.
- The session read on Linux now uses `/proc` instead of a syscall. It
gives the same value, and it reports 0 (now `None`) in the same cases.

## Model Used

- Anthropic Claude Opus 5.5 (`claude-opus-5-5`), via Claude Code with
tool use (shell, file edits).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 06:38:24 -06:00
DottaandClaude Opus 5.5 9db7da444f fix(chat): point agents at the teams catalog for ready-made teams (#20239)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Agent Chat answers a person's requests with a chat agent that reads
the API catalog and the chat guidance
> - Paperclip ships a teams catalog of ready-made teams that a company
can preview and install
> - The chat guidance does not name this catalog, and its API catalog
entries have only short summaries
> - So agents asked for a "ready-made team" check only the existing
agents and skills, or search npm and GitHub
> - This pull request names the teams catalog where the agent already
looks: the chat guidance and the API catalog entries
> - The benefit is that agents find, preview and link ready-made teams
instead of saying none exist

## Linked Issues or Issue Description

**What happened**
An agent was asked "Do we have a ready-made team for building a
website?". It read only the company's agents, projects and skills. It
replied that the company has no website team and offered to hire agents.
It did not read the teams catalog, which has a Product Engineering team.
An agent was asked "Show me what installing the website team would
add.". It found `GET /api/teams/catalog`, but found no team named
"website". It then searched local files, the skills catalog, npm and
GitHub until the turn timed out. It did not preview the install.

**Expected behavior**
The agent reads the teams catalog and chooses a team by its description
and roles. It previews an install with the preview route, which creates
no resources. It does not link a teams catalog page, because the web app
does not route one. It does not search outside Paperclip for other
teams. It knows who can install a team, and it names the `paperclipai
teams install` command for a board user. Preview also works in Ask and
Plan modes, because it saves no data.

**Steps to reproduce**
1. Create a company with only a CEO agent.
2. In Agent Chat, ask "Do we have a ready-made team for building a
website?".
3. Read the run. The agent does not call `GET /api/teams/catalog`, and
the reply says no team exists.
4. In a new chat, ask "Show me what installing the website team would
add.".
5. Read the run. The agent searches npm and GitHub and does not call the
preview route.

## What Changed

- `server/src/services/agent-conversations.ts`: the chat directive has a
new short paragraph. It says that ready-made teams are packages in the
teams catalog. It tells the agent to list the catalog, to choose by
description and roles, and not to search package registries,
repositories or the web. It names the preview route and says that
preview creates no resources. It says who can install. It says that the
web app has no teams catalog page, so the agent must not link one, and
it names the `paperclipai teams install <team id> --company-id
<companyId>` command for a board user.
- `server/src/routes/openapi.ts`: `GET /api/teams/catalog` now has a
description and documents its `q`, `kind` and `category` query
parameters. The preview route says that it creates no resources. The
install route says who can install and names the CLI command.
- `server/src/services/native-runtime/runner-api-catalog.ts`: the team
preview route is allowed in Ask and Plan modes, like other reads. It
computes a plan and saves no data. Install stays in standard mode only.
- Tests in `agent-conversations.test.ts` and `runner-api.test.ts`. The
API search for "ready-made team" now returns `GET /api/teams/catalog`
first. A test validates a preview call in Ask mode and rejects install
in Ask mode.

## Verification

- `pnpm exec vitest run --root server
src/services/native-runtime/runner-api.test.ts
src/__tests__/agent-conversations.test.ts
src/__tests__/openapi-routes.test.ts
src/__tests__/teams-catalog-routes.test.ts`: all tests pass.
- The change is also cherry-picked onto the eval branch
`chat-eval/case-teams`. The live Runner E2E cells for `teams.find-team`,
`teams.preview-install` and `teams.install-team` run there.

## Risks

- Low risk. Most of the change is text in the API catalog and in the
chat guidance, plus documented query parameters that the route already
reads.
- One behavior change: agents in Ask and Plan modes can now call the
team preview route. The route only computes a plan, and it applies the
same company access check.
- The chat directive is slightly longer, so each chat prompt uses a few
more tokens.
- Related open PR #18970 adds request body schemas to the same team
routes. The two changes touch nearby lines and can need a small merge.

## Model Used

- Anthropic Claude Opus 5.5 (`claude-opus-5-5`), with tool use and code
execution in Claude Code.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 05:36:24 -06:00
DottaandClaude Opus 5.5 3f2a940d5b fix(runner): answer held Paperclip tool calls after a local restart before the next turn (#20227)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - When a restart interrupts a turn, the Runner keeps each Paperclip
tool call the model made as "held" until Paperclip answers it, and it
refuses to start the next turn while any call is held
> - Paperclip answers held calls after a reattach through its tool
recovery path. That path was wired only for remote runners
> - In restart chaos wave `w-20261109T084023-s9403`, t101 (local codex,
K2 then K1) held a `read_document` call that nothing answered, so the
continuation's `turn.start` failed and the task needed a Retry
> - This pull request wires held-call recovery for local runners too,
and makes `turn.start` answer or wait for held calls first
> - The benefit is that a turn lost to a restart no longer strands the
run behind one unanswered call

## Linked Issues or Issue Description

Refs #19831. Restart chaos wave `w-20261109T084023-s9403` (master
`fc5c79a327`), task t101 (codex C1, K2, local).

**What happened:**
- Run `4b5810d5` called `read_document` (`exec-ac8fa9b4`) around the K2
drain at 09:08:18. A K1 then killed the next server start.
- At 09:08:36 the third controller reattached. The Runner restored the
conversation and reported the old turn lost
(`provider_turn_lost_on_restore`, recoverable). The held call stayed
pending, by design: a held call accepts a late result.
- The controller had the call: the quarantine detail lists
`exec-ac8fa9b4` under `semanticTools.pending`. But
`recoverPendingSemanticInputs()` returned at once: for a local run
`controllerPersistence` is unset, so `recoverSemanticToolInput` was
`undefined`.
- At 09:08:46 the continuation's `turn.start` failed with "cannot
prepare the next provider turn while tool calls are active (pending: 1
[read_document:exec-ac8fa9b4…])". The run ended
`native_session_interrupted`.

## What Changed

- `server/src/services/native-runtime/native-session-executor.ts`: the
runnerd transport now always gets `recoverSemanticToolInput`, not only
when `controllerPersistence` (remote) is set. It uses the same epoch
check and `SessionAuthorityEpoch.recover`. Recovery re-authorizes and
re-runs reads, and replays receipts for mutations; it never repeats an
uncertain mutation.
- `packages/paperclip-runner/src/live/runnerd-codex-transport.ts`
(`#startTurnWork`): when the control plane has unsettled semantic
inputs, it runs `recoverPendingSemanticInputs()` before queueing
`turn.start`, and waits for that pass, bounded by the turn-start
deadline. Recovered results are queued as commands ahead of
`turn.start`, and the Runner applies commands in order. If recovery has
not finished by the deadline, the turn start fails with
`native_turn_start_held_tool_calls_unresolved` instead of sending
`turn.start` behind it. When everything is settled there is no wait, so
a normal turn start is unchanged. Live calls of a turn being replaced
are not waited on; the replaced start still rejects them.
-
`packages/paperclip-runner/src/control-plane/durable-prp-control-plane.ts`:
`recoverPendingSemanticInputs()` passes are serialized. A call made
while the startup pass is still answering a held call waits for that
pass, then runs its own, so the turn-start gate cannot finish early by
skipping a call that is already being recovered.

## Verification

Red/green:
- `native-session-executor.test.ts` "answers a local run's held
Paperclip tool calls after a restart (restart chaos t101)". On master
`recoverSemanticToolInput` is `undefined` for a local run; with this PR
it is wired.
- `runnerd-codex-transport.test.ts` "answers a held call before starting
the next turn (restart chaos t101)", against real runnerd and fake
Codex, with a slow startup recovery pass already in flight when
`turn/start` arrives. On master `turn/start` never ran recovery, and
without the serialization `turn.start` is queued before the held call's
result. With this PR the held call is recovered once and its result is
queued before `turn.start`.

Regression and static checks:
- `runnerd-codex-transport.test.ts`,
`durable-prp-control-plane.test.ts`,
`runnerd-codex-transport-adoption.test.ts`: 510 passed.
- `native-session-executor.test.ts` and `native-session-resume.test.ts`:
1368 passed, 1 failed. The failing case, "archives a damaged prior epoch
… with real runnerd", fails identically on master on this Mac (`ENOENT …
authority-epochs`), so CI is its reference.
- `tsc --noEmit` passes for `packages/paperclip-runner` and `server`.

## Risks

- Local runs now recover held calls after a reattach, as remote runs
already did. Reads re-run under current authority. A mutation without a
saved receipt still returns no result and stays held, as before.
- `turn.start` may now wait up to its existing deadline while a recovery
pass runs, then fails clearly if it has not finished. It never waits
when nothing is unsettled, so normal turns get no added latency before
`turn.start`.
- No schema change and no change to persisted run state formats.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), Anthropic, via Claude Code with
tool use (shell, file edits).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 05:26:12 -06:00
DottaandClaude Opus 5.5 c5da0b88ad fix(native): take over a remote runner at once when its old controller is proven gone (#20240)
## Thinking Path

- Restart recovery should be fast and fault-proof; "restarts are product
failures". Remote (Daytona) runs must recover as quickly as local ones
once it is safe.
- Phase 3's Daytona K13 storm (`w-20261109T100435-s9503`) showed Codex
`restart_recovery_control_plane` p50 34.9 s, p95 61.1 s. That's
Paperclip's own share, before any provider load.
- The run logs show why. After a hard restart, each slow run sat in
"Native restart recovery is waiting for safe ownership evidence" with
reason `remote_controller_lease_live` for about 51 s, until the dead
controller's 60 s remote-controller lease expired.
- On the remote path, `evaluateNativeControllerTakeover` deliberately
skips every process proof and waits for the lease. That's correct when
the previous controller might live in another container or on another
host. When it recorded this exact process space, the shared prover (pid,
process start, boot id) can prove it gone, which is the same proof the
local path already trusts.

## Linked Issues or Issue Description

**What happened?**
After a hard control-plane restart, a remote (Daytona) native run could
not be recovered until the dead controller's 60 s remote lease expired.
Recovery took about 35–60 s, even though the old controller process was
provably gone.

**Steps to reproduce**
1. Run a Codex task in a Daytona environment.
2. Hard-kill the control plane (SIGKILL) while the run is active, then
restart it.
3. The run logs `native.recovery.transition` "waiting for safe ownership
evidence" (`remote_controller_lease_live`) and resumes only when the
lease expires.

**Expected behavior**
When the previous controller ran in this same process space and is
proven gone, recovery takes over the remote runner immediately. It still
waits for the lease whenever the previous controller cannot be proven
gone.

## What Changed

- `server/src/services/native-runtime/native-restart-recovery.ts`,
`evaluateNativeControllerTakeover` with `remoteLeaseFenced`:
  - An expired or released lease is allowed, as before.
- A live lease whose holder recorded this exact process space
(`controllerHostHash`, neither missing nor unknown) and a controller PID
goes through the shared owner-gone prover, with
`requireStoppedController`. A positive proof allows the takeover, with
reason `remote_lease_<proof reason>`, for example
`remote_lease_controller_process_dead`.
- The one-release null-host fallback is never accepted for a remote
runner.
- A holder in another process space is never probed (the existing "must
not probe another container's PID" test still holds). It waits for the
lease, as before.
- `native-restart-recovery.test.ts`: a new test, red on master, covers:
  - takeover when this-process-space controller is dead;
  - waiting while it is alive;
  - waiting without a probe when the process space differs.

## Verification

- The 7 server test files that cover the takeover decision pass (351
tests): `native-restart-recovery`, `native-controller-host-recovery`,
`native-remote-retry-admission`, `native-recovered-owner-followup`,
`native-runner-restart-diskless.integration`, `heartbeat/recovery` and
`controller-instance-lease`.
- Evidence: kept-instance DB copy from the Daytona K13 wave. In run
`ba194ae7`, the `awaiting_evidence` transition
`remote_controller_lease_live` lasted from 04:26:06.8 to 04:26:57.9,
then `bootstrap_incomplete` restart.
- A Daytona K13 rerun will measure the before and after.

## Risks

- **Takeover soundness** rests on the shared prover, which the local
path already uses for the same controllers: same process space, PID dead
or definitely restarted, and boot-id proof where needed. If the old
controller is alive, the decision still waits for the lease.
- **Multi-host or containerized controllers** record a different process
space, so they are unaffected and still fenced by the lease.
- **The remote runner** keeps its own reconnect grace (7 min). The new
controller reattaches through the existing durable-authority path; only
the wait before that changes.

## Model Used

Claude Opus 5.5 (`claude-opus-5-5`, Anthropic), 1M context window, tool
use and code execution, via Claude Code.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 05:18:44 -06:00
DottaandClaude Opus 5.5 bd83715a6e fix(recovery): bootstrap a remote follow-up again when a restart cut it off after retiring its finished owner (#20241)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A restart must resume in-progress runs on its own. Restart recovery
classifies each claimed native run and the executor acts on that claim.
> - A C1 follow-up on a remote sandbox first retires the finished owner
of the previous turn (it archives the previous controller state), then
launches a new runner.
> - A restart in that window left the run with an inherited session
checkpoint but no runner for this run. Recovery read the inherited
checkpoint as proof of a live remote runner and claimed reattach. The
executor then found no runner identity and failed with
`durable_identity_unreadable`, so the user had to press Retry.
> - This pull request makes recovery recognize that nothing reached a
runner for this run, and makes the executor bootstrap again over the
empty root.
> - The benefit is that this restart window resumes the follow-up by
itself.

## Linked Issues or Issue Description

**What happened?**
In restart-chaos Daytona K13 storm wave seed 9503, task t03 (codex, C1)
graded R3 retry_needed. Follow-up run 0d8b7258 retired its previous
owner at 10:07:32.988 ("Run 4ee1c19a finished without a saved runner
checkpoint; starting a new runner"). A K1 kill at 10:07:34 cut it off
before any runner start was requested. On restart, recovery claimed
`reattach_remote_runner` and the executor failed with
`runner_state_identity_mismatch: durable_identity_unreadable`. The run
ended with `native_continuation_requires_reconciliation` and a Retry
offer.

**Expected behavior**
Recovery sees that no runner was ever requested for this run, claims
`bootstrap_incomplete`, and the executor starts the new runner the first
attempt was about to start.

**Steps to reproduce**
1. Run a remote (Daytona) C1 follow-up whose previous turn finished.
2. Kill the server after the follow-up retires the finished owner and
before it records `native.process_start_requested`.
3. Restart the server. See the `reattach_remote_runner` claim and the
`durable_identity_unreadable` failure.

**Paperclip version or commit**
master at 3963d38560

## What Changed

- `native-restart-recovery.ts`: the `remote_runner_never_launched` proof
also holds when the run carries only its continued session. That means a
session checkpoint with a matching identity and no projected provider
event, active turn, semantic result, terminal or pending runtime
request, plus the predecessor's `sessionIdBefore`. The proof still
requires no `native.process_start_requested`, no controller checkpoint
for this run, no runner process identity and no `sessionIdAfter`. The
classifier then sees no checkpoint for this run.
- `native-session-executor.ts`: a `bootstrap_incomplete` claim over a
root with no runner identity and no controller state quarantines that
root and bootstraps again for a remote target too. Previously only a
local target with no live runner process could do this. Such a root was
never authenticated by a controller on this host.
- Tests: four classifier cases (restart; a requested runner start, a
pending runtime request and a projected provider event stay held). Two
executor cases (created and replacement sandbox) restart the exact state
the kill left after the retire.

## Verification

- Red before the fix: the classifier test got a non-bootstrap claim. The
executor tests failed with `runner_state_identity_mismatch:
durable_identity_unreadable`, the error from the wave. Both pass after
it.
- `native-runner-restart-recovery.integration.test.ts` and
`native-recovered-owner-followup.test.ts`: 239 passed.
- `native-session-executor.test.ts`: 1,310 passed.
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck` in `server`: passes.

## Risks

- Low to medium. The proof widens only for a claimed remote run with
none of its own start, checkpoint, runner or provider evidence. A
pending runtime request in the inherited checkpoint still holds the run,
as in #20226.
- The quarantined root keeps the archived previous owner for inspection.
The usual quarantine retention applies.
- Previous-release story: no saved state or schema changes. A run that
an older build left in this state is classified with the new rule at its
next claim.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), Anthropic, via Claude Code with
tool use and code execution.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 05:17:15 -06:00
DottaandClaude Opus 5.5 df4562ab38 fix(native): an inherited checkpoint with a pending runtime request is evidence (#20226)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - #20153 and #20214 let restart recovery set aside a remote
follow-up's admission-rebound checkpoint when the checkpoint is blank
and nothing of the run reached a runner. Recovery then restarts the
bootstrap instead of blocking
> - "Blank" checked the cursor, terminal turns, active turn, semantic
result and terminal, but not pending runtime requests
> - A rebound checkpoint that still carried an outstanding runtime
request would therefore be treated as no evidence. The run would restart
as a fresh bootstrap and drop that request
> - This pull request also requires no pending runtime requests before
the checkpoint counts as a blank admission checkpoint
> - The benefit is that an outstanding request always keeps the run on
its reconciling path

## Linked Issues or Issue Description

Refs #20214

**What happened?**
After #20214 merged, ponytail review noted that
`admissionCheckpointOnly` (shared by #20153's
`remoteRunnerNeverReceivedCommands` and #20214's
`inheritedCheckpointOnly`) did not inspect `pendingRuntimeRequests`. A
rebound checkpoint with a pending request would be demoted to "no
evidence", and the run restarted as `remote_execution_never_claimed`,
dropping the request.

**Expected behavior**
A checkpoint with any pending runtime request is evidence. The run is
not restarted as a fresh bootstrap.

**Steps to reproduce**
1. Claim restart recovery for an unclaimed remote follow-up whose
rebound checkpoint carries a pending runtime request and no other state.
2. Before this change, recovery claims `bootstrap_incomplete`.

**Paperclip version or commit**
Current master after #20214.

## What Changed

- `native-restart-recovery.ts`: `admissionCheckpointOnly` additionally
requires `pendingRuntimeRequests` to be absent or empty.
- `native-runner-restart-recovery.integration.test.ts`: a held case, an
unclaimed remote follow-up whose inherited checkpoint carries a pending
runtime request.

## Verification

- Red/green: on master the held case is restarted as
`bootstrap_incomplete`. With the change it is not, and the other cases
are unchanged.
- `vitest run` of `native-runner-restart-recovery.integration.test.ts`
and `native-restart-recovery.test.ts`: 2 files, 201 tests passed (14
skipped).
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck` (`server`): passed.

## Risks

- Minimal. The change only narrows when a checkpoint counts as blank.
Every run it affects keeps the existing, more conservative
classification.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), via Claude Code with tool use
(shell, file edits, test execution).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 03:31:35 -06:00
DottaandClaude Opus 5.5 8525bb534c fix(chat): post a turn's answer when a card it did not create is pending (#20220)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - People talk to agents in Agent Chat. The agent's final message
becomes the chat reply.
> - A chat thread can hold a pending card that the board addressed to
another person, for example a human-only confirmation for Riley.
> - When Alex asks the agent to act on that card, the agent correctly
gets `403 interaction_human_only` and writes a final answer that
explains the denial.
> - The shared answered rule (`conversationTurnAnswered()`, from #20179
and #20204) counted any pending human-only card in the thread as the
turn's own response. So the answer was suppressed, and the chat stayed
`active` with no reply.
> - This pull request limits that rule to cards that the turn's own run
created. Other cards still hold the task status.
> - The benefit is that the person always gets the turn's answer, unless
the turn itself asked a question with a card. Live completion and
restart recovery stay consistent.

## Linked Issues or Issue Description

Refs #20179, #20204 (the shared answered rule this PR corrects).

**What happened**

In an Agent Chat, the board created a pending `request_confirmation`
card with `resolverPolicy: human_only`, addressed to another user
(Riley). The card has no source run. Alex wrote "I approve Riley's
request." The agent tried to accept the card and got `403
interaction_human_only`. It then wrote a correct final answer: the card
needs Riley. The run succeeded with a `yielded` result and a
`response_wake` continuation. Run completion recorded
`presentationDecision: none`. No comment was created. The conversation
stayed `active`, so Alex never got a reply.

Cause: `conversationTurnAnswered()` reused the status-gate query
`pendingNativeInteraction()`. In conversation mode, that query excludes
another run's card only when it is an ordinary question or an `anyone`
confirmation. A human-only card addressed to someone else is kept. The
rule then treated that card as the card that "presents the turn",
although this run did not create it.

**Expected behavior**

A successful chat turn posts its final answer exactly once, and the
conversation moves to `waiting`. Only a pending question or confirmation
card that the turn's own run created presents the turn in place of its
prose. A card from an earlier turn, or one the board addressed to
another person, can hold the task status, but it does not suppress the
answer.

**Steps to reproduce**

1. Open an Agent Chat as Alex.
2. As the board, create a pending `request_confirmation` card in the
chat with `resolverPolicy: human_only` and `addresseeUserId` set to
another person.
3. Send "I approve Riley's request."
4. Let the agent try to accept the card, get `403
interaction_human_only`, and end its turn with a final answer.
5. See that no reply appears, `presentationDecision.commentAction` is
`none`, and `conversationState` stays `active`.

## What Changed

- `server/src/services/native-runtime/native-governance.ts`:
`conversationTurnAnswered()` now checks only pending cards whose
`sourceRunId` is the turn's run. `pendingNativeInteraction()` gets an
optional `createdByRun` filter for this. The status gate
(`pendingNativeGovernance()`) does not change, so another person's card
still holds the task.
- Both callers get the fix through the one shared rule
`conversationTurnPresentsAnswer()`: live run completion
(`run-completion.ts`) and background presentation recovery
(`recoverCommittedNativeChatResponse`).
- `server/src/services/heartbeat/run-completion.test.ts`: new live cases
"someone else's confirmation card" (board-created, human-only, addressed
to another user, no source run) and "earlier turn's question card"
(created by an earlier run of the same agent). Each case now also checks
that the conversation moves to `waiting`.
-
`server/src/services/native-runtime/agent-chat-response-recovery.test.ts`:
new restart case for the board-created card, plus a `waiting` check
after recovery.
- `doc/execution-semantics.md`: state that only the turn's own card
presents the turn.

## Verification

- Thesis: the reply is suppressed because the answered rule counts any
pending human-only card in the thread, not only this run's card. If this
is true, a turn with only a board-created card addressed to someone else
posts no comment on master, and restricting the rule to `sourceRunId =
runId` posts exactly one comment and settles the conversation to
`waiting`, with the own-card cases unchanged.
- Failing first: without the fix, the two new live cases failed
(`expected [] to deeply equal [answer]`). The new recovery case also
failed (no comment).
- After the fix:
- `cd server && npx vitest run
src/services/heartbeat/run-completion.test.ts -t "posts a waiting
conversation turn"`: 9 passed (includes the two own-card cases, which
still post nothing).
- `cd server && npx vitest run
src/services/native-runtime/agent-chat-response-recovery.test.ts`: 62
passed.
- Both suites use a real embedded PostgreSQL database.
- Turn start: no change. The rule runs only after the provider turn
ends.

## Risks

- Low. Only the presentation rule changes. The status gate, the
conversation settle rule (it already required `sourceRunId = run.id`)
and the external-chat path do not change.
- Behavior shift: a turn now posts its answer while another run's or the
board's card is pending. Before, the answer was lost. A card that the
turn itself created still presents the turn, as before.
- Previous-release state: no persisted shape change. A run that the
previous release already recorded as `none` keeps that decision.
Recovery does not re-present it.

> For core feature work, check [`ROADMAP.md`](ROADMAP.md) first and
discuss it in `#dev` before opening the PR. Feature PRs that overlap
with planned core work may need to be redirected — check the roadmap
first. See `CONTRIBUTING.md`.

## Model Used

- Anthropic Claude Opus 5.5 (`claude-opus-5-5`), with tool use (shell,
file edits, test runs) in Claude Code.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 03:22:01 -06:00
DottaandClaude Opus 5.5 fe72bc5f81 fix(native): roll back a warm rotation cut off before its new control plane once its runner is proven dead (#20218)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A warm follow-up rotates authority before it attaches. It archives
the previous epoch (suspended runner state and settled controller) under
`authority-epochs/`, then writes its own control plane
> - #20146 taught recovery to roll back a rotation whose new control
plane held only an undelivered `run.attach`, once its runner was proven
dead
> - A hard kill can land one step earlier, after the archive and before
the new control plane exists. The root then holds only the archive, with
no active control plane and no runner state. The executor read "no
durable identity" and failed with `runner_state_identity_mismatch:
durable_identity_unreadable`
> - This pull request applies the same proven rollback to that earlier
point of the rotation
> - The benefit is that a hard kill anywhere in the rotation window
resumes the follow-up from the previous turn

## Linked Issues or Issue Description

Refs #20146

**What happened?**
Local mixed restart-chaos wave w-20261109T081456-s9901 (master
09e24dd12c), t15 (codex M1):
- Run `4b85497f` started at 08:29:32 as a warm follow-up and requested
its process, then K1 killed the server.
- Recovery stopped the previous run's warm runner (pid 60249) and
claimed `resume_dead_runner`.
- The executor failed with `runner_state_identity_mismatch:
durable_identity_unreadable`.

The quarantined root held:
- `authority-epochs/epoch-c2842347…` with the previous owner `dc7d447b`:
runner `suspended`, every command completed;
- no `control-plane/` state and no `runner/runner-state.json`, only
provider state.

A Retry ran fresh. Phase 3 also saw the same signature on Daytona;
#20214 covers that remote shape.

**Expected behavior**
For a local runner proven dead (`resume_dead_runner`), a root that holds
only the archive of a suspended previous owner of this session restores
that epoch, and the follow-up continues from the previous turn. Without
a dead-runner claim it still fails closed.

**Steps to reproduce**
1. Start a warm follow-up and hard-kill the server after the rotation
archives the previous epoch, before it writes the new control plane.
2. Restart. Before this change, the follow-up fails with
`durable_identity_unreadable`.

**Paperclip version or commit**
09e24dd12c (wave). Branch rebased on current master.

## What Changed

- `native-session-executor.ts`:
- `undeliveredAttachRotationSource` becomes `interruptedRotationSource`,
and the new `latestSuspendedArchivedEpoch` shares the epoch checks:
named by its identity digest, a matching suspended runner state.
- Besides #20146's undelivered-attach shape, it accepts a root with no
`runner-state.json` and no active control plane (absent or empty). In
that case the epoch must belong to this session (`normalizedSessionId`)
and to a different run.
- The rollback moves an active control plane aside only when one exists.
- `native-recovered-owner-followup.test.ts`: #20146's rotation test adds
the "cut off before its new control plane" shape. With a dead-runner
claim it is admitted from the restored previous owner; without the claim
it still fails closed.

## Verification

- Red/green: on master, the new admitted case fails with exactly
`durable_identity_unreadable`. With the change it is admitted. The
fail-closed cases are unchanged.
- `vitest run` of the recovered-owner, restart-recovery and bootstrap
test files and `native-session-executor.test.ts`: 8 files, 1627 tests
passed (14 skipped).
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck` (`server`): passed.

## Risks

- Low risk:
- The rollback still requires a `resume_dead_runner` claim on a local
runner, an absent runner state, and an archived epoch of this session
whose runner is suspended and whose name matches its identity.
- Restoring only moves files back within the root, and nothing is
deleted.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), via Claude Code with tool use
(shell, file edits, test execution).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 03:20:23 -06:00
DottaandClaude Opus 5.5 ad57d5cc12 fix(native): restart an unclaimed remote follow-up that carries only its inherited checkpoint (#20214)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A remote per-turn follow-up inherits the previous run's session
checkpoint at admission, rebound to its own identity. Its session root
still holds the previous owner's remote marker until the follow-up
rotates authority
> - If a restart lands before the follow-up's controller ever claims
execution, recovery should restart its bootstrap: nothing of this run
reached any runner
> - Recovery's unclaimed-bootstrap check required no checkpoint and no
provider evidence. The inherited checkpoint failed both, so recovery
claimed `reattach_remote_runner`
> - Even under a bootstrap claim, the executor skipped the per-turn
projection restore for every restart claim. It therefore never
rehydrated the previous owner's external marker, and failed with
`runner_state_identity_mismatch: durable_identity_unreadable`
> - This pull request does not count the inherited checkpoint as
evidence for an unclaimed remote run, and lets a bootstrap claim restore
the previous owner's projection, as a fresh follow-up start does
> - The benefit is that a follow-up drained in its first second on
Daytona restarts on its own

## Linked Issues or Issue Description

Refs #20153

**What happened?**
Daytona per-turn restart-chaos K13 storm w-20261109T074128-s9503
(revision 9046884811), t26 (codex C1): follow-up run `f1ddc43d` started
at 07:54:18 and was drained by SIGTERM at 07:54:19, during workspace
staging.
- It had not requested a runner process, and its coordinator was never
claimed (provider attempt 0).
- Recovery claimed `reattach_remote_runner` (`hasCheckpoint: true`,
`hasProviderEvidence: true`, both from the inherited checkpoint).
- The executor failed with `runner_state_identity_mismatch:
durable_identity_unreadable`, because the session root held the previous
run's external marker. A Retry succeeded.

**Expected behavior**
An unclaimed remote run whose only checkpoint is the admission-rebound
one, with no durable controller record and no provider events, restarts
its bootstrap (`remote_execution_never_claimed`). The executor
rehydrates the previous owner's projection and starts the follow-up from
it.

**Steps to reproduce**
1. Start a remote per-turn follow-up whose session root holds the
previous owner's external marker. Drain the control plane before the
follow-up's controller claims execution.
2. Restart. Before this change, recovery claims `reattach_remote_runner`
and the executor fails with `durable_identity_unreadable`.

**Paperclip version or commit**
9046884811 (wave). Branch rebased on current master.

## What Changed

- `native-restart-recovery.ts`:
- #20153's admission-rebound checkpoint test moves earlier. A new
`inheritedCheckpointOnly` holds for a remote sandbox run (not a plugin
task) with only that checkpoint, no durable controller record, no staged
attachment and no provider events.
- The unclaimed-bootstrap path and its classification then treat that
checkpoint as neither a checkpoint nor provider evidence.
- `native-inherited-runner-retry.ts` / `native-restart-recovery.ts`: a
warm continuation carries its settled predecessor's runner process
identity until it launches its own runner, and t26's row still held pid
596 at the restart.
- The new `carriesInheritedRunnerIdentity` reuses the same-run retry
path's proof (the exact pid, group and start time a settled predecessor
recorded).
- The restart classifier then ignores that inherited identity on the
unclaimed path, for a run that carries only its inherited checkpoint.
  - A process identity that is the run's own still holds the run.
- `native-session-executor.ts`: `restorePerTurnRunnerdController` now
also runs for a `bootstrap_incomplete` claim, but only when the root's
reference identity belongs to a previous run. A claim on the run's own
root returns early, as before.
- Tests:
- `native-runner-restart-recovery.integration.test.ts`: an unclaimed
remote follow-up with only its inherited checkpoint restarts, with no
process identity and with its predecessor's runner identity. It stays
held with its own runner identity, or when a provider event was
projected;
- `native-recovered-owner-followup.test.ts`: a bootstrap claim over the
previous owner's external marker is admitted, rehydrating the marker,
keeping the backup and quarantining nothing.

## Verification

- Red/green: both new tests fail on master. The classifier test claims
`reattach_remote_runner`, and the executor test fails with exactly
`durable_identity_unreadable`. Both pass with the change, and the held
case holds.
- `vitest run` over the restart-recovery, bootstrap, recovered-owner and
failed-workspace-recovery test files and
`native-session-executor.test.ts`: 9 files, 1715 tests passed (14
skipped). After the inherited-identity change, the restart-recovery,
bootstrap, recovered-owner, failed-workspace-recovery and
inherited-runner test files: 8 files, 407 tests passed (14 skipped).
Without the identity check, the inherited case is not restarted.
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck` (`server`): passed.

## Risks

- Low risk:
- The inherited checkpoint stops counting only when the database shows
no controller record and no provider event for the run, and the existing
unclaimed-bootstrap conditions all still hold.
- The executor change runs the existing fresh-follow-up projection
restore, with all of its own checks, only for a root that still belongs
to the previous run.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), via Claude Code with tool use
(shell, file edits, test execution).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 03:10:23 -06:00
DottaandClaude Opus 5.5 98e0f1fc0d fix(native-runtime): a stopped run cannot close a task another run continues; deliver a pre-restart comment at once (#20216)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - When the board stops a run and then posts a comment asking the agent
to continue, that comment starts a new run, and only that new run should
decide when the task is done
> - In restart chaos wave `w-20261109T081456-s9901`, t16 (claude S1, K1)
closed the task as done without the line the user asked for, and t10
(codex S1, K6) never woke a run for the continue comment, so it needed a
Retry
> - In t16, the stopped run's saved "done" result was accepted 10 s
after the continue run started. In t10, a restart killed the server 21
ms after the comment committed, before its wake was written, and the
comment backstop then waited out its 30 s grace
> - This pull request stops a run from closing a task that another run
now holds, and makes the backstop deliver at once a comment that
predates the server process
> - The benefit is that a user's latest direction after a Stop is
neither overridden by the stopped run nor lost to a restart

## Linked Issues or Issue Description

Refs #19831. Restart chaos wave `w-20261109T081456-s9901` (master
`09e24dd12c`), tasks t16 and t10.

**t16, from the kept database (CHA-20):**
- 08:29:19: the board stopped run 1 (`6e33d123`). Its saved result
reported done, but finalization failed on the stop
(`finalization_failed_claim_preserved`, a retryable failure).
- 08:29:41: the user's continue comment started run 2 (`2cb71c5b`). Run
2 held the task's execution and saw the comment.
- 08:29:51: the finalization reconciler retried run 1's saved result and
committed `completion_claim_policy_accepted` for run 1. The task closed
as done.
- From then on, every Paperclip tool call from run 2 was refused
(`paperclip_runner_tool_binding_not_authorized`), so it could not add
the `CONTINUE-…` line. Its result (blocked) was then preserved as
`terminal_status_preserved`.
- Run 2 ending `succeeded` with `native_session_lease_lost` follows from
this: its result was accepted before the lease was lost. The comment was
delivered; the model saw it.

**t10 (CHA-14):**
- The Stop moved the task to blocked. The user's comment reopened it to
todo at 08:26:28.633, and K6 killed the server at 08:26:28.654, before
the route wrote the comment's wake. No wake request exists for that
comment.
- This is not caused by the Stop, #20066 or #20180: the wake is written
after the comment commits, and the kill landed in between.
- The I4 backstop ("a user comment without a wake") matched the comment,
but treated it as possibly still getting its normal wake for 30 s. The
pass interval then pushed the check to 02:27:16, and the harness clicked
Retry at 02:26:59.

## What Changed

- `status-arbiter.ts`:
  - New `heldByAnotherRun(issue, runId)`.
- `supersedeStaleOwnerCompletion` also keeps status, with reason
`completion_run_superseded`, when the issue's `executionRunId` is a
different run. A run that was reassigned away still gets
`completion_owner_superseded`.
- `native-run-finalizer.ts` and `native-status-reassessment.ts` pass the
run id to that guard.
- `status-decision-committer.ts` rechecks the same rule under the issue
lock: a done decision for a non-conversation issue held by another run
raises `NativeStatusRaceError`. The finalizer then re-arbitrates and
keeps status.
- `ownership-invariant-report.ts`: the comment-without-wake grace now
only applies to comments created after this server process started
(`getServerProcessStartedAt`). Separate live server replicas are not
supported, and the wake is written by the process that accepted the
comment, so an older comment is owed at once. The startup pass now
delivers it. `runOwnershipReconciliationPass` takes an optional
`processStartedAt`.

## Verification

Red/green:
- `native-stale-owner-completion.test.ts`: three new tests.
- The unit policy: another run holding the task keeps status; the same
run, or none, still closes it.
- "does not let a stopped run's saved done result close the task a newer
run is continuing" (the t16 shape).
- "does not close the task when a newer run takes it after arbitration
but before the status commit" (only the committer recheck covers this).
  - On master: 3 failed. With this PR: 13 passed.
- `ownership-reconciliation-report.test.ts`: "finds at once a young user
comment whose wake a restart lost after the board stopped the run" (the
t10 shape). It fails on master and passes with this PR; the same comment
in a process that accepted it still waits for its grace deadline. The
file: 27 passed.

Regression and static checks:
- 16 nearby native finalization, status projection, workspace finalizer
and arbiter suites: 439 passed.
- `tsc --noEmit` passes for `server`, and for the two test files.

## Risks

- A done result now waits when a different run holds the task. That run
reaches its own decision; the earlier result stays as history. If the
holder is stale, the existing execution-lock recovery clears it, and a
later reassessment can then close the task.
- After a restart, a user comment newer than the task's last run, with
no wake, is delivered at the startup pass rather than 30 s later. A
replica that is still live and writing the same wake is not a supported
topology.
- No schema change and no change to persisted run state.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), Anthropic, via Claude Code with
tool use (shell, file edits).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 03:03:15 -06:00
DottaandClaude Opus 5.5 b1049b174e fix(native): retire a finished remote owner whose suspend never finished once its sandbox leases ended (#20211)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Before a per-turn follow-up starts a new runner, it retires the
previous turn's finished owner. Retirement requires the owner's
controller journal to be settled
> - A local runner that is proven stopped can no longer act on its own
lifecycle commands, so an unfinished `runner.suspend` from it does not
hold the follow-up
> - On a remote per-turn sandbox the same thing happens when a restart
or drain lands while the runner is suspending. But the remote path had
no equivalent rule, so the unfinished `runner.suspend` held the
follow-up even after the previous run's sandbox lease had ended
> - This pull request treats a remote owner's lifecycle commands as
settled once every sandbox lease of that run has been released or
expired, and none of them is the sandbox the follow-up now uses
> - The benefit is that a C1 follow-up after a restart on Daytona
continues on its own

## Linked Issues or Issue Description

Refs #20140

**What happened?**
Daytona per-turn restart-chaos K13 storm w-20261109T074128-s9503
(revision 9046884811, image 01246d43): 60 of 65 passed. Three C1
follow-ups failed with `runner_state_identity_mismatch:
prior_owner_terminal_state_indeterminate;
retirement_refused=journal_commands_unsettled(runner.suspend.pending)`:
- t04 codex, run `c7446d0c`;
- t16 claude, run `4b2c770f`;
- t39 claude, run `3ef7d934`.

For t04, the previous owner `fc585314` committed its `run.terminal`, and
its journal kept only `runner.suspend` pending. Its per-turn lease
(`5576f27d…`) expired at 07:43:52, and the follow-up ran on a new
sandbox. Each Retry succeeded.

**Expected behavior**
Once the previous run's sandbox leases have all ended, and the follow-up
runs on another sandbox, the previous runner cannot act on its suspend.
The finished owner is retired and the follow-up continues.

The owner stays held while any of these holds:
- a lease is active, retained or pending cleanup;
- the follow-up runs on the same sandbox;
- no lease is recorded.

**Steps to reproduce**
1. Finish a remote per-turn run whose controller journal keeps
`runner.suspend` pending after its committed run terminal, and let its
sandbox lease end.
2. Start a follow-up on a new sandbox. Before this change, retirement
refuses with `journal_commands_unsettled(runner.suspend.pending)`.

**Paperclip version or commit**
9046884811 (wave). Branch rebased on current master.

## What Changed

- `native-session-executor.ts`:
- the new `priorRemoteSandboxLeasesEnded` checks the previous run's
`environment_leases`: at least one lease, every one `released` or
`expired` with `releasedAt`, and none on the current target's provider
lease;
- `inspectFinishedPerTurnRunnerdOwner` passes the result as
`remoteRunnerGone` to `readSettledRunnerdProjection`, for the live root
and for quarantined copies. That function then ignores unfinished runner
lifecycle commands (`runner.suspend`, `runner.drain`,
`runner.shutdown`), exactly as it already does for a stopped local
runner.
- `native-recovered-owner-followup.test.ts`: a red/green test with lease
variants. A lease that ended or was released on another sandbox is
admitted. A retained lease, an ended lease on the same sandbox, or no
lease record stays held.

## Verification

- Red/green: on master, the two admitted cases fail with exactly the
production error; with the change they are admitted. The three held
cases hold on both.
- `vitest run` of the recovered-owner, remote-warm and restart-recovery
test files and `native-session-executor.test.ts`: 7 files, 1634 tests
passed (14 skipped).
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck` (`server`): passed.

## Risks

- Low risk. Only runner lifecycle commands become settled, and only when
the database proves every sandbox of the previous run has ended and the
follow-up runs elsewhere. Unfinished turn, tool or result commands, a
missing run terminal and unanswered tool input still hold.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), via Claude Code with tool use
(shell, file edits, test execution).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 02:40:13 -06:00
DottaandClaude Opus 5.5 6fd46c0025 perf(budgets): judge Paperclip's share of restart recovery; report the provider's session load (#20183)
## Thinking Path

- Speed budgets protect the time to first visible agent activity, and
restart recovery is one of the judged metrics
(`native-speed-budgets.ts`, wave grader).
- In the B1 concurrency-6 chaos wave (`w-20261109T045320-s9807`), Codex
`restart_recovery` was p50 8.6 s and p95 11.2 s, against a budget of 6.5
s and 8.0 s. At concurrency 4 (K13) it was 3.8 s and 5.0 s.
- The preparation spans on a copy of the kept database break it down:
- Paperclip's share (ready → claim → prepare → runtime stage → runner
launch) is a steady 1.2–2.0 s.
- `provider.session.load`, the Codex app-server boot plus
`thread/resume` of long saved sessions, takes 3.0–6.3 s, 65–75% of each
recovery.
- Resumes run concurrently, and the worktree lock and the startup
reconciler are not on the path.
- Judging the full latency therefore mixes our code with provider and
session-size effects. Budget the part we control, so a regression in our
code shows up regardless of session size or concurrency, and report the
rest.

## Linked Issues or Issue Description

**What happened?**
`restart_recovery` breached its budget whenever many long provider
sessions resumed at once, although Paperclip's own recovery work stayed
within about 2 s. The breach did not point at anything Paperclip could
fix, and a real regression in our code could hide inside the
provider-load variance.

**Steps to reproduce**
1. Run a local chaos wave at concurrency 6 with long-running Codex tasks
and K1/K2/K4 faults (for example B1, seed 9807).
2. Compare `restart_recovery` in `speed.json` with
`provider.session.load` in the recovered runs' run logs.

**Expected behavior**
The budget judges Paperclip's share of a recovery. The provider's
session load and the full latency are reported but not judged.

## What Changed

- `server/src/services/native-runtime/native-speed-budgets.ts`:
- New budgeted metric `restart_recovery_control_plane`: from `ready` to
the start of `provider.session.load`, or to the next provider event when
nothing reloads (for example a reattached runner).
- Its budget is 2.5 s / 4.0 s for claude, codex and opencode. Measured:
1.2–2.0 s per run at concurrency 6.
  - The full `restart_recovery` stays in the table for reporting.
  - Breach payloads carry `restartTotalMs` and `providerLoadMs`.
- `server/src/services/native-runtime/native-run-trace.ts`:
- The per-run check records when `provider.session.load` starts, keeps
the recovery measurement, and judges it when the run finishes.
- It judges after the deferred diagnostics drain, so a provider span
committed after the provider event still counts.
  - It emits `restart_recovery_control_plane` breaches only.
- `tests/restart-chaos/ttft-baseline-stats.ts`: each recovery sample
gains `controlPlaneMs` and `providerLoadMs`. The provider-load start is
the span event's write time minus its duration.
- `tests/restart-chaos/wave-speed.ts`:
- Three restart rows per adapter: `restart_recovery` (report-only),
`restart_recovery_control_plane` (budgeted) and `restart_provider_load`
(report-only).
  - All three have outage time removed.
- `tests/restart-chaos/ttft-baseline.ts`: the recovery table adds a
"Paperclip share" column.
- Docs: `doc/run-log-events.md` (metric and payload) and the
speed-budget table in
`doc/plans/2026-11-07-durable-ownership-and-reconciliation.md`.

## Verification

- `server`: `npx vitest run
src/services/native-runtime/native-speed-budgets.test.ts`, 18 passed.
Two new tests:
  - a recovery dominated by provider load does not breach;
- a slow Paperclip share breaches with `restartTotalMs` and
`providerLoadMs`, even when the provider span is committed after the
provider event.

The existing recovery tests moved to the new metric. All six were red
before the trace change.
- `tests/restart-chaos`: `npx vitest run --config
tests/restart-chaos/vitest.config.ts wave-speed.test.ts
ttft-baseline-stats.test.ts`, 29 passed. New tests cover the sample
split and the grader rows (a judged share, a report-only provider load,
zero breaches).
- Server typecheck: no errors in the touched files.

## Risks

- **Lower sensitivity to provider-side slowdowns.** A provider
regression in session load no longer breaches. It stays visible in the
report-only rows and in breach payloads.
- **Runs with no `provider.session.load` span** (reattach, or an adapter
that doesn't emit it) are judged on the full latency against the
control-plane budget. That's conservative.
- **Run-log consumers that filter on `metric: "restart_recovery"`** see
`restart_recovery_control_plane` from now on. The doc notes the change
date.

## Model Used

Claude Opus 5.5 (`claude-opus-5-5`, Anthropic), 1M context window, tool
use and code execution, via Claude Code.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 01:22:28 -06:00
DottaandClaude Opus 5.5 ad2304dc88 fix(chat): recover a held conversation turn's answer after a restart (#20204)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - People talk to agents in Agent Chat. The agent's final message
becomes the chat reply.
> - A chat turn can end while its task stays held: a pending approval,
an execution stage or a dependency blocker keeps the status.
> - #20179 made live run completion post that held turn's answer. It
added `conversationTurnAnswered()`.
> - Background presentation recovery still required a
`conversation_turn_finished` decision and a `done` result.
> - If the server restarts between the status commit and the live
presentation, recovery skips the held turn. The person never gets an
answer.
> - Restarts are product failures. A committed answer must not be lost.
> - This pull request makes recovery use the same answered rule as the
live path, through one shared helper.
> - The benefit is that a held turn's answer reaches the chat exactly
once, with or without a restart.

## Linked Issues or Issue Description

Refs #20179 (live fix; this PR closes the "Known gap" in its Risks
section).

**What happened**

In an Agent Chat, the agent resubmitted a hire approval and ended its
turn with a yielded result. The finalizer committed
`governed_response_waiting` and moved the task to `in_review`. The
server restarted before run completion posted the reply. Background
presentation recovery found the run as a candidate, but declined it,
because it accepted only `conversation_turn_finished` with a `done`
result. No reply was posted. The run stayed a pending presentation
candidate.

**Expected behavior**

After a restart, recovery posts the held turn's final answer exactly
once. It never posts a second copy when the live path already presented
the answer. When the turn's own question or confirmation card presents
it, recovery posts nothing and records that decision, as the live path
does.

**Steps to reproduce**

1. Open an Agent Chat. Link a pending hire approval to the chat task.
2. Let the agent end the turn with a yielded result and a
`response_wake` continuation. The status decision commits as
`governed_response_waiting`.
3. Stop the server after the status commit and before run completion
presents the reply.
4. Start the server. Presentation recovery runs.
5. See that the chat shows no reply.

## What Changed

- `server/src/services/native-runtime/native-governance.ts`: add
`conversationTurnPresentsAnswer()`. It is the one rule for whether a
successful conversation turn's prose is its answer:
`conversation_turn_finished`, or a committed decision with no pending
card of the turn (`conversationTurnAnswered()`).
- `server/src/services/heartbeat/run-completion.ts`: the live path calls
the shared helper. No change in behavior.
- `server/src/services/native-runtime/native-run-finalizer.ts`
(`recoverCommittedNativeChatResponse`):
- A current conversation turn no longer needs
`conversation_turn_finished`. The turn must still be the unsettled
current turn: same agent, user, session generation, `conversationState:
active`, and no other execution run. A `conversation_turn_finished` turn
still needs `in_progress`.
- A conversation turn with a `yielded` result is accepted next to
`done`.
  - The resolver gets `conversationTurnFinished` from the shared helper.
- When the turn's own card presents it, recovery records
`presentationDecision: none` (reason
`committed_conversation_interaction_presented`) and settles the
conversation turn, like the live path. The run then leaves the pending
presentation set. Before, such a run stayed a candidate.
-
`server/src/services/native-runtime/native-response-presentation-query.ts`:
the candidate prefilter matches the same turns: any committed reason for
an active conversation turn, and `yielded` conversation results.
-
`server/src/services/native-runtime/agent-chat-response-recovery.test.ts`:
restart regressions with the real finalizer and a real database.
- `doc/execution-semantics.md`: state that recovery applies the same
rule.

## Verification

- Failing first. With only the new tests applied, 5 of 7 new cases
failed: pending approval, revision-requested approval, execution stage
(all yielded), pending approval with `done`, and the own-card case. The
run was a candidate, but recovery posted nothing and did not settle it.
- After the fix: `cd server && npx vitest run
src/services/native-runtime/agent-chat-response-recovery.test.ts
src/services/heartbeat/run-completion.test.ts
src/__tests__/idle-native-finalization.test.ts
src/services/presentation-ownership-read.test.ts
src/services/chat-monitor-continuation.test.ts
src/services/native-runtime/native-preserved-monitor-wait.test.ts
src/services/native-runtime/native-response-publication-retry.test.ts
src/services/heartbeat/run-lifecycle.test.ts
src/__tests__/scoped-deadline-work.test.ts
src/services/native-runtime/paperclip-control-plane-port.test.ts
src/__tests__/heartbeat-run-summary.test.ts
src/__tests__/agent-conversations.test.ts`: 12 files, 627 tests passed.
- The new cases check:
- Held turns: the run is a candidate, the check posts the exact final
answer once, the presentation decision is recorded, the run leaves the
candidate set, and a second recovery returns false with one comment.
  - Live already presented: no candidate, no second comment.
- Own question card: no comment, `presentationDecision: none`, the card
stays pending, the conversation settles to `waiting`, and the run leaves
the candidate set.
- Previous-release live decision `none` (`yielded_control_plane_wait`):
kept, not re-presented.
- `tsc --noEmit -p server`: no errors in changed files. Four unrelated
errors remain in this local worktree (`esbuild` not linked in
`native-harness-prestage.test.ts`, and a linked-package type mismatch in
`run-dispatch/adapters/postgres.ts`).
- Turn start: no change. The helper runs only in run completion (after
the provider turn ends) and in background presentation recovery. Nothing
new runs before `turn.start`, and no files move. The live path keeps the
same queries: it short-circuits on `conversation_turn_finished`, and
otherwise runs the same card read as before.

## Risks

- Low to medium. Recovery can now post the answer of a conversation turn
whose task is held. This matches the live path since #20179.
- A card-presented turn found by recovery is now settled with
`presentationDecision: none`. Before, it stayed a pending candidate and
kept the presentation worker (and idle-sleep checks) busy.
- A `conversation_turn_finished` turn keeps the `in_progress` check.
Held turns accept any status their gate committed. The unsettled-turn
checks (active conversation state, session generation, execution run)
still block stale or superseded turns.
- Previous-release state: no persisted shape changes. A run committed by
the previous release with no saved presentation decision (the restart
window) is recovered by the new code. The test fixture uses the
unchanged finalizer, so it saves exactly the previous release's shape. A
run whose live path already recorded a decision keeps it. A held turn
that the previous release recorded as `yielded_control_plane_wait` is
not re-presented, so no late duplicate or stale reply appears.
- Not changed: generic stranded-work recovery in `recovery/service.ts`
still skips only `conversation_turn_finished` runs during the
publication window.

> For core feature work, check [`ROADMAP.md`](ROADMAP.md) first and
discuss it in `#dev` before opening the PR. Feature PRs that overlap
with planned core work may need to be redirected — check the roadmap
first. See `CONTRIBUTING.md`.

## Model Used

- Anthropic Claude Opus 5.5 (`claude-opus-5-5`), with tool use (shell,
file edits, test runs) in Claude Code.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 01:08:10 -06:00
Nicky LeachandClaude Opus 5.5 9046884811 perf(native-runtime): claim a parked Runner while the follow-up run prepares (#20195)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Paperclip Runner executes native agent runs. A host can park an idle
Runner (release it and freeze it) between runs, and resume it for the
next run on the same task.
> - A follow-up run that reuses a parked Runner must claim it first. The
claim is a bootstrap ticket, a checkpoint flush, and the plugin resume
that thaws the Runner.
> - Core made the claim only inside `attachRun`, after all of its
per-run preparation. The claim does not depend on that preparation, so
the two ran in series.
> - This pull request starts the claim while Core still prepares the
run. `attachRun` then waits for the claim that is already in progress.
> - The benefit is a shorter start for every follow-up run on a parked
Runner. The model below gives about 285 ms per run at P50.

## Linked Issues or Issue Description

No public issue exists. The issue is described inline.

**What happened?**

A follow-up run that reuses a parked Runner claims the Runner only in
`attachRun`. Core calls `attachRun` after backend setup: runner
environment, assigned MCP tools, tool authority and the plugin task
owner. The claim waits for all of this, but it uses none of it.

**Expected behavior**

The claim runs at the same time as backend setup. Everything that needs
the new run's tool authority stays at attach.

**Steps to reproduce**

1. Run a Codex or Claude task on a host that parks Runners between runs.
2. Let the run finish and the Runner park.
3. Send a follow-up. Before this change, the plugin resume starts only
after backend setup ends.

**Paperclip version or commit**

`master` at 7086019d4b.

**Deployment mode**

Hosted, with parked Runner tasks.

## What Changed

- **Transport** (`runnerd-codex-transport.ts`):
- New `beginRunAttachment({ runId })`. It runs the attach admission
checks, then starts the existing `#claimReleasedRunner` as the held
attachment operation. It returns `false` and does nothing when the
Runner is not released and confirmed, a claim already exists, or
admission fails.
- The admission checks move into `#assertRunAttachmentAdmission`.
`beginRunAttachment` runs them first, and `attachRun` runs them again.
- The next `attachRun` for the same run waits for the early claim. An
`attachRun` for a different run, `release` and `turn/start` still fail
with `native_runner_run_attachment_in_progress` while the claim is held.
- After an early claim, `attachRun` fails with
`native_runner_resume_reconciliation_expired` before it registers if the
claim deadline has passed.
- **Pass-throughs:** `HarnessNativeSession`, `CodexHarnessSession` and
the session, harness and transport contracts get an optional
`beginRunAttachment`. Each layer does the same identity,
protocol-integrity and busy checks that its attach does.
- **Core** (`native-session-executor.ts`):
- The executor records when the in-memory warm entry it reuses was
parked (`released`).
- `createRunnerdBackend` gets `beginRetainedRunAttachment`. Core gives
it only for that parked in-memory warm entry.
- The plugin task owner preparation moves into `preparePluginTaskOwner`.
On the early path, Core prepares and rebinds the retained owner at the
same time as the runner environment and the assigned MCP tools, then
starts the claim.
- Cold, adopted, remote warm recovery and restart paths keep the old
order.

### What stays at attach, and why

- Registration, the quiescence probe, `run.attach` and the authority
rotation stay in `attachRun`. Checkpoint registration needs the new
run's tool authority epoch, and Core creates that epoch during backend
setup.
- The admission checks run again at attach, so a state change during
preparation still blocks the attachment.

## Verification

- `vitest run src/live/runnerd-codex-transport-release-resume.test.ts`
(runner): 21 passed. Five new modes:
- `early claim`: `attachRun` waits for the held claim and does not route
the new run before the claim ends;
- `early claim abandoned`: a close after the claim ends fails the
waiting `attachRun` with `closed`, and the new run is never routed;
- `early claim cancellation`: a close during the claim cancels it, and
the next `attachRun` fails with `closed`;
- `early claim expired`: the deadline passes during the claim, and
attach fails before it registers;
- `early claim stale ticket`: the deadline passes after the claim,
before attach.
- `vitest run plugin-runner-release-resume.integration.test.ts
plugin-runner-eviction.integration.test.ts` (server, with real Runner
processes from `cargo build --workspace --bins`): 2 files, 51 passed,
none skipped. New modes:
- `cached held claim` (Codex and Claude): the plugin resume is held, and
the test proves Core's tool preparation runs while the claim is in
progress;
- `cached cancellation` (Codex): a cancellation after an early claim
retires the Runner and the run stops cleanly.
- `pnpm run typecheck:typescript` (runner) and `pnpm typecheck`
(server): pass.
- Evidence (modeled, not measured live): traces of 8 resumed runs on
parked Runners in a hosted test deployment, on current `master`. The
claim takes about 300 ms, and it fits inside backend setup in 7 of 8
runs. The modeled saving is about 285 ms per follow-up on a parked
Runner at P50 (range 208–331 ms). I did not run this change on a hosted
deployment.
- Not run: the full server suite (CI runs it), smoke tests, and the
hosted park, claim and attach loop with this change.

## Risks

- **New failure mode:** Core now claims the parked Runner before backend
setup ends. If that run then fails preparation, or is cancelled before
attach, the existing retire path closes the claimed session. The Runner
is retired, so that agent's next follow-up starts cold. Before this
change, a preparation failure happened before the claim, while the
Runner was still parked.
- **Ordering:** the retained plugin task owner is rebound to the new run
earlier, before Core creates tool authority. Nothing in the owner
preparation reads that authority. A failure in tool authority setup now
happens after the rebind, and the retire path handles it.
- **Scope:** only an in-memory warm entry that was parked takes the
early path. Cold launches, adopted Runners, remote warm recovery and
restart recovery are unchanged.
- **Deadline:** the claim deadline now starts earlier. A very slow
backend setup can make the claim expire before attach. Attach then fails
with `native_runner_resume_reconciliation_expired` before it registers,
the same failure as a slow claim today.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`) in Claude Code, with tool use
(shell, git, GitHub CLI) and subagents.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [ ] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-08 22:56:08 -08:00
DottaandClaude Opus 5.5 3964ee1fca fix(native): a governance pause Stop with no turn result stays a cancellation (#20186)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A budget hard stop pauses the company; the pause's lifecycle Stop
cancels the agents' running native turns
> - When a Codex turn is interrupted this way, it ends without a
semantic result
> - The native executor treated that missing result as a retryable
interruption, so it rewrote the cancelled run to `failed` and scheduled
an exact resume
> - The pause held that recovery, and Raise budget and resume continues
only runs that are still cancelled, so the task stayed blocked with no
new run
> - This pull request makes the executor treat an acknowledged
governance pause Stop like a person's Stop: the run stays cancelled
> - The benefit is that Raise budget and resume continues the task
(#20144), with no manual Retry

## Linked Issues or Issue Description

Refs #20144 (resume continues budget-stopped work), #20143 (governance
pause stops are not failures), #20113

**What happened?**
Restart-chaos wave w-20261109T051242-s9802 (H1, seed 9802), task t03
(Codex, fault K2). The company budget crossed its hard limit at
05:19:39.9. The pause's lifecycle Stop ("Agent lifecycle stop
requested") cancelled run 59e976bc at 05:19:40.05, and Codex
acknowledged the interrupt. The turn ended without a semantic result,
and at 05:19:41.27 the executor rewrote the run to `failed` /
`native_session_interrupted`, with an agent-owned `active_run_watchdog`
recovery (exact checkpoint resume). The task went to `blocked`. After
`raise_budget_and_resume` at 05:20:20, no run started for 14 minutes.

**Expected behavior**
A pause's Stop is intentional. The run stays cancelled with its pause
record, and resuming continues the task once.

**Steps to reproduce**
Pause a company for budget while a Codex native turn runs, so the Stop
interrupts the turn before it records a result. Before this change, the
run becomes `failed` with a scheduled exact resume instead of staying
`cancelled`.

## What Changed

- `native-session-executor.ts`: the no-semantic-result branch now also
accepts an acknowledged governance pause Stop (`isGovernancePauseStop`
with an acknowledged native Stop receipt) as an intentional stop. It
settles the coordinator as `native_retry_cancelled` and raises
`NativeCancellationPendingRecoveryError`, as it already does for a
person's Stop and for a reassignment. The run is not rewritten to
`failed`, and no recovery action is created.
- The Stop's cancellation record is written by its fence before
dispatch, so the check does not depend on whether the terminal write has
landed.

## Verification

- `native-session-executor.test.ts`: new cases for "Agent lifecycle stop
requested" with a `pauseStop`, and for "Cancelled due to budget pause".
Each was red before the fix (it reached the retryable-failure write) and
is green now. A control case shows that a system lifecycle Stop without
`pauseStop` (termination) still takes the retry path.
- Full `native-session-executor.test.ts`: 1309 passed. Server typecheck
(`typecheck-layers`, low-memory): no errors.
- Not run: the H1 chaos rerun. Phase 3 runs it after merge.

## Risks

- A governance pause Stop that lands during a turn no longer schedules
an exact resume of that turn. The task continues on resume through a new
Retry (#20144) instead.
- Termination and cleanup use the same lifecycle Stop reason. They are
excluded because only the pausing path records `pauseStop`.

> For core feature work, check [`ROADMAP.md`](ROADMAP.md) first and
discuss it in `#dev` before opening the PR. Feature PRs that overlap
with planned core work may need to be redirected — check the roadmap
first. See `CONTRIBUTING.md`.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), Anthropic, via Claude Code with
tool use (shell, file edits, test execution). Extended reasoning
enabled.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 00:42:25 -06:00
DottaandClaude Opus 5.5 7d92b6a7cd fix(api): use a neutral catalog pointer in the call_api protocol refusal (#20191)
## Thinking Path

- Paperclip agents reach REST routes through the `call_api` tool;
protocol endpoints (MCP, OAuth, WebSocket) are refused there with
guidance.
- #20170 changed that refusal to tell the agent the endpoint's catalog
description says who can use it.
- Review on #20170 found that some protocol endpoints' descriptions (for
example the WebSocket entries) do not say who may call them, so the
refusal could send the agent to look for information that is not there.
- The fix (e7ff8ba610) was pushed three minutes after #20170 merged, so
it never reached master. This PR carries it.

## Linked Issues or Issue Description

Refs #20170

**What happened:** after #20170, a `call_api` refusal for a protocol
endpoint says the catalog description names who can use it. Some
descriptions, such as `GET /api/companies/{companyId}/events/ws`
("WebSocket upgrade. Not callable through call_api."), do not, so an
agent following the refusal looks for an answer the catalog does not
give.

**Expected behavior:** the refusal points the agent at the catalog
description neutrally ("Read its catalog description for details.")
without promising it names who may call the endpoint.

**Steps to reproduce:**
1. As an agent, call `call_api` with `GET
/api/companies/{companyId}/events/ws`.
2. Read the refusal text: it claims the description says who can use the
endpoint.
3. Read the catalog entry: it does not.

## What Changed

- `server/src/services/native-runtime/runner-api-client.ts`: the
protocol-endpoint refusal now says "Read its catalog description for
details." instead of promising the description names who can call it.
- `server/src/__tests__/assistant-connections-guidance.test.ts`: adds a
case on the WebSocket events endpoint asserting the neutral wording.

## Verification

- `cd server && npx vitest run
src/__tests__/assistant-connections-guidance.test.ts` (4 passed).
- Commit was reviewed on #20170's branch by Ponytail (the finding that
prompted it).

## Risks

- Low: wording-only change to one refusal message, plus a test. Agents
may read slightly less specific guidance for endpoints whose
descriptions do name the caller; the description itself is unchanged.

## Model Used

- Provider: Anthropic. Model: Claude Opus 5.5 (`claude-opus-5-5`), via
Claude Code, with tool use and code execution. The change was authored
by a Claude subagent on #20170 and carried over here by Claude.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 00:31:49 -06:00
DottaandClaude Opus 5.5 2fc0293586 fix(api): tell agents only the person can revoke assistant connections, and where (#20170)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - People connect external assistants to Paperclip, and each person
manages their own assistant connections in the browser
> - Chat agents find API routes through `search_api` and call them with
`call_api`
> - The catalog entries for `/api/mcp/connections` did not say who can
use them or which page holds the control
> - `call_api` refuses these routes as protocol endpoints, and its
message did not say the refusal is final
> - A chat agent asked to "disconnect my old assistant" searched for an
agent route for its whole turn and did not reply
> - This pull request names the person-only boundary and the page in the
catalog, and makes the refusal final
> - The benefit is that the agent replies at once with a link to the
page where the person revokes the connection

## Linked Issues or Issue Description

No public issue exists. This is a bug report.

**What happened**

A person asked the chat agent: "Disconnect my old assistant, but leave
the website task running." The agent found `DELETE
/api/mcp/connections/{id}`. `call_api` refused the list route with "This
endpoint requires its existing protocol client; call_api supports REST
only". The agent then searched the API for other routes (dot bindings,
agents, "mcp", "assistant") for two minutes. The turn timed out with no
reply. The agent wrote in its reasoning that there "must be a supported
path".

**Expected behavior**

The agent tells the person that only they can revoke the connection,
links the Assistant connections page, and says the delegated task keeps
running.

**Steps to reproduce**

1. Connect two assistants to a company as one person. Let the first
assistant create a task for an agent.
2. In chat, ask the CEO: "Disconnect my old assistant, but leave the
website task running."
3. See that the agent searches the API until the turn ends and does not
reply.

## What Changed

- `server/src/routes/openapi.ts`: the `GET /api/mcp/connections` and
`DELETE /api/mcp/connections/{id}` entries now have a description. It
says only the signed-in person can list or revoke their assistant
connections, links `[Assistant
connections](/<prefix>/apps/assistant-connection)`, notes that the
connected assistant itself can revoke its own token through OAuth token
revocation, says not to search for another route, and says that tasks
the assistant already created keep running.
- `server/src/services/native-runtime/runner-api-client.ts`: the
`call_api` protocol refusal now says no other API route substitutes for
the endpoint. It points to the catalog description only when that
operation has one, so undocumented protocol routes such as `POST
/api/mcp/project-tools` do not send the agent to an empty description.
- `server/src/__tests__/assistant-connections-guidance.test.ts`: new
regression test. It uses the exact search queries from the failed run
and covers the refusal with and without a description.
- `server/src/__tests__/public-mcp.test.ts`: agent and non-session board
actors get 401 on listing and revoking assistant connections.

## Verification

- `cd server && pnpm exec vitest run
src/__tests__/assistant-connections-guidance.test.ts
src/__tests__/primary-agent-guidance.test.ts
src/__tests__/openapi-routes.test.ts
src/services/native-runtime/runner-api.test.ts` passes (2111 tests).
After the review fixes,
`src/__tests__/assistant-connections-guidance.test.ts
src/__tests__/public-mcp.test.ts
src/services/native-runtime/runner-api.test.ts` passes (2157 tests), and
the server `tsc --noEmit` passes.
- The new test fails on `master` without the change (2 failures) and
passes with it.
- The end-to-end check is the
`assistant-connections.revoke-personal-grant` chat eval with this commit
cherry-picked.

## Risks

- Low risk. The change is catalog text and one error message. No route,
permission or data behavior changes.

## Model Used

- Anthropic Claude Opus 5.5 (`claude-opus-5-5`), with tool use and code
execution in Claude Code.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-09 00:08:31 -06:00
Devin FoleyandPaperclip 9b71d03215 fix: recover interrupted native preparations and unblock upgrades (#20177)
## Thinking Path

> - Paperclip manages AI-agent companies and their work.
> - A native run prepares its workspace before a runner PID or
checkpoint exists.
> - A server crash can interrupt that stage and leave its controller on
another host.
> - Recovery needs a durable owner proof, a delivered recovery wake, and
the saved execution contract.
> - The old paths missed controller lease registration and boot proof,
skipped checkpoint-free preparations, and counted retained work as live
upgrade blockers.
> - This PR connects preparation to the existing controller lease and
recovery paths, and separates retained work from the upgrade census.
> - The result is bounded recovery without a second executor or loss of
saved work.

## Linked Issues or Issue Description

**What happened?**

A native preparation interrupted by a server crash could remain running
indefinitely with no runner PID or checkpoint. Native controller stamps
did not wake the shared instance lease. That lease was disabled on
volume-backed Railway services, and native takeover omitted the boot
binding needed for its cross-host proof. Scoped recovery selected
checkpoint-backed runs but skipped these preparations. The upgrade probe
then counted the retained row as current execution and could block every
later upgrade.

**Expected behavior**

Track the preparation's controller before a runner starts. Recover it
through the normal classifier after proving its owner stopped or fencing
that boot. Keep live or unprovable owners held. Deliver recovery wakes
to preparations without checkpoints. Preserve unresolved historical work
and report it separately from current execution during upgrade
observations.

**Steps to reproduce**

1. Save an observed native preparation with no runner process, result,
provider-start evidence or checkpoint.
2. Replace its controller with a process in another PID space. Let its
owner lease expire and send a scoped recovery wake.
3. Before this fix, recovery skips the checkpoint-free preparation or
cannot prove its foreign controller stopped. Upgrade readiness continues
to count that old row as a live blocker.

Related work: #18037, #19651, #19868, and #20168. The foreign-PID guard
from #19868 remains. The queued first-turn input fix from #20168 is
included through the current base.

## What Changed

- Register the existing instance lease when native execution and restart
claims are written. Keep passive identity reads free of ownership
effects. Keep that lease enabled on volume-backed Railway services
unless explicitly disabled.
- Preserve the existing PID/start-time proof within the same readable
PID space. Bind foreign or unknown-space takeover to its saved boot and
last write. A live lease or grace period keeps the run held with a
scheduled check. Repeated evidence waits preserve their timestamp.
- Include explicitly fenced, checkpoint-free preparations in the
existing finite recovery candidate inventory. Normal launch, checkpoint,
provider evidence and admission checks still decide whether work may
resume.
- Expose the existing board stop-confirmation operation for historical
foreign-host owners. Bind confirmation to the exact run, boot, PID,
process start and host. Reject changed ownership.
- Report narrowly defined old, unowned preparations as
`retainedBlockedRuns` outside the live upgrade census. Local executions,
pending admission, drain state, truncation and positive checkpoint proof
retain their barriers.
- Update the execution contract and add PostgreSQL, real-route, race and
preservation regressions.

## Verification

- Genuine red/green regressions cover the old upgrade census, missing
native lease registration, the volume-backed default, foreign-host
confirmation, and scoped recovery skipping checkpoint-free preparation.
Test bodies ran against real PostgreSQL before their corresponding
production changes.
- Combined verification before the final idle correction (head
`055be6c84d9`): **459 passed, 22 skipped, 11 files passed**. Covers
controller lease/identity, native restart classification and
integration, host confirmation, heartbeat recovery, instance route
authorization, upgrade readiness, and queued first-turn input. The
focused command used `pnpm exec vitest run` with those 11 suites and
`--maxWorkers=1 --no-file-parallelism`. The 22 skipped cases require the
Rust debug fake-Codex fixture, which was not built locally; the
real-process CI coverage must pass.
- `pnpm --filter @paperclipai/server typecheck`: passed on head
`055be6c84d9b058064daad0af71bb5d893ab9529`.
- Actual route proof uses the real heartbeat service and PostgreSQL.
Unauthorized access returns 403. The retained run and owner records
remain unchanged. Recovery integration admits one bootstrap claim across
two replacement controllers, keeps a live owner held, and preserves
local execution.
- `pnpm verify`: exit 2, requests broad CI because the execution
contract changed. Full local suite not run. Current-head CI must supply
broad coverage.
- Local source checkout on macOS ARM64, Node v25.6.1, pnpm 9.15.4. Tests
use isolated PostgreSQL. No live provider restart is claimed by those
fixtures.
- CI found an idle-query regression in the first version of the lease
wiring. Two focused PostgreSQL regressions reproduced the misplaced
identity-read notification and the missing claim notification. The fix
moves registration to actual ownership writes. `env -u npm_execpath pnpm
exec vitest run server/src/__tests__/maintenance-server-routes.test.ts
--maxWorkers=1 --no-file-parallelism`: **17 passed**, including 90 real
seconds and two qualified hourly windows with no extra idle queries. An
initial local setup attempt inherited npm metadata and did not run
tests; clearing that metadata selected the correct pnpm helper. Three
focused controller/native suites also passed **168 tests, 22
fixture-gated skips**. Server typecheck passed after the correction on
head `4a527326dcd5b3a9e286f0e4c3e761d3056af4d9`.
- The older CI server shard also exposed a same-space graceful-restart
regression. The new boot fallback had overridden local process-exit
proof. Seven suspension cases and a focused unit regression reproduced
it; the fix limits boot fallback to foreign or unknown PID spaces. Fresh
verification on `acf1065d98150210c1e227c7f3b05a1eb489730b`: **251
passed, 22 fixture-gated skips, 4 files passed**, including all **40**
graceful-restart suspension tests. Server typecheck passed. The local
regression failed before this correction, and the same-space and
foreign-space paths pass together after it.
- Current-head CI completed successfully on
`acf1065d98150210c1e227c7f3b05a1eb489730b` (run 42568109784). Greptile
reviewed that exact head at 5/5 with no unresolved review threads.
- Secret and private-data scans passed. No workflow, lockfile or
migration changes.

## Risks

- The instance lease now applies to volume-backed Railway services. Its
existing 30-second renewal, quiescence, grace and self-fence behavior
applies while work is held. Idle servers retain the existing no-query
behavior. An explicit `PAPERCLIP_CONTROLLER_INSTANCE_LEASE=off` remains
available.
- A controller lease proves only the server owner's state. It does not
prove an agent process stopped or authorize replay, resource release or
volume removal. The existing classifier and provider/runner checks
remain responsible for those decisions.
- Previous-release records keep their shape and saved state. A missing
boot lease stays unprovable and requires the scoped stop-confirmation
path. A changed confirmation target is rejected.
- The upgrade observation does not recover a held task by itself. Source
tests do not qualify a hosted replacement. Deployment and the affected
task's useful result must be verified separately.
- This repairs recovery after a crash; it does not claim to identify or
fix every source of heap exhaustion.

## Model Used

OpenAI `gpt-6.1-sol`, xhigh reasoning effort, through Codex in T3 Code,
with repository, shell, and GitHub tools. Context window size is not
exposed by the runtime.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-11-08 21:53:13 -08:00
Nicky LeachandClaude Opus 5.5 2d93413085 perf(runner): prepare the next Claude provider generation at park (#20145)
## Thinking Path

> - Paperclip runs agents through Paperclip Runner, and a host can park
an idle Runner between runs and resume it for the next run on the same
task.
> - For Claude (ACPX), a follow-up run on a parked Runner pays about
1.5–2.3 s at `run.attach` before the provider can start the turn. The
attachment closes the Claude sidecar and spawns a new one: initialize,
`session.open` with `session/load`, `run.attach`, then a dormant verify.
> - The respawn is required. The tool-bridge MCP endpoint lasts for the
whole session and can't tell which turn a late callback came from, so a
new turn must not run in a process that ran an earlier one.
> - Nothing requires the respawn to happen at the *start* of the next
run. A turn that ends 2 s later is a better experience than one that
starts 2 s later.
> - This pull request does the respawn while parking. The next run's
`run.attach` then only rebinds the run id on a fresh, never-used
generation.
> - Follow-up Claude runs on a parked Runner reach the provider about
1.5–2 s sooner, and the late-callback guarantees are unchanged.

## Linked Issues or Issue Description

No public issue exists. The issue is described inline.

### What happened?

On a hosted deployment with parked Runners, Claude follow-up runs
reached the provider about 1.8 s later than Codex follow-ups.
`runner.session.resume` medians were 5.2 s for Claude and 3.4 s for
Codex. The extra time is the ACPX respawn inside `run.attach`. Codex
keeps its process in place.

### Expected behavior

The respawn happens while the Runner parks, so the next run starts on a
prepared generation.

### Steps to reproduce

1. Run a Claude (ACPX) task on a host that parks Runners between runs.
2. Let the run finish and the Runner park.
3. Send a follow-up. `run.attach` closes the provider and starts,
initializes, opens and attaches a new sidecar before `turn.start`. The
Claude CLI itself starts at the first prompt on either path.

### Paperclip version or commit

`master` at e194e193.

### Deployment mode

Hosted, with parked Runner tasks.

## What Changed

- **`durable/runner.rs`:**
- New `CommandExecutor::prepare_for_park(deadline)` hook, a no-op by
default. The runner passes a deadline 20 s after the park request; the
host waits 30 s for the reply.
- The Park host-control arm calls it after `host_park_ready()`,
re-proves readiness, and only then replies `parked`.
- A failure records a diagnostic and replies `conflict`, the existing
park-failure path.
- **ACPX, park side** (`acpx_park_preparation.rs`,
`acpx_provider_generation.rs`):
- For Claude, with the session open, nothing pending and nothing queued:
reap the old generation, using the same suspend-and-reap sequence a
second turn uses.
- Start the replacement with the current run attached, and prove it
dormant.
  - Roll the tool receipt epochs and the turn-identity ledger over.
- Record a digest of the session configuration it was opened with,
ignoring the MCP binding id and the aggregate digest.
- Every sidecar request during preparation is capped at the park
deadline. Running out of time fails like any other preparation failure.
- **ACPX, attach side:**
- A prepared, never-used generation whose digest matches the next run is
rebound: the sidecar gets `run.attach` with the new run id, the reducer
and tool bridges are reset, and the snapshot is checked for the new run
id.
- Anything else takes today's cold path: a different tool set, skill,
prompt or launch; a buffered callback; or any rebind error.
- **ACPX, turn start:** the provider restarts when its generation has
run a turn, instead of when the run has settled turns.
`has_settled_turns` is removed.
- **ACPX, polling:** polling skips a prepared generation until it is
rebound or starts a turn, so nothing it emits is attributed to the
parked run.
- **Sidecar** (`acpx-runtime-sidecar.ts`): rejects `run.attach` once a
turn has started in that process.
- **Fake sidecar:** reports live predecessors at process start, and adds
the faults `reject-open`, `late-tool-after-suspend` and `pre-turn-tool`.

## Verification

- `cargo test -p paperclip-runner-core`: 1029 passed (debug).
  - New `tests/acpx_park_preparation.rs` (10 tests). These prove:
- park reaps the old pid before spawning the new one, and acks only
after the dormant verify;
- a late callback from the old generation after park is rejected, and so
is a pre-turn call from the new generation;
- a compatible attach keeps the pid, and the sidecar and snapshot carry
the new run id;
- changed instructions, tools, skills or runtime context take the cold
path;
    - a used generation is never rebound;
- a prepare failure produces a park conflict and a recoverable state;
    - Retire works after a prepared park;
- a replacement whose `session.open` stalls fails at the park deadline,
leaves the session suspended, and the next run attaches and completes a
turn.
- `cargo fmt --check` and `cargo check --workspace --locked`: clean.
- `vitest` `acpx-runtime-sidecar.test.ts` and
`acpx-sidecar-input.test.ts`: 126 passed. The new re-attach guard test
fails if the guard is removed.
- `vitest` `plugin-runner-release-resume.integration.test.ts` and
`plugin-runner-eviction.integration.test.ts` with the branch's Runner:
48 passed. Both now expect the provider process to be replaced at park
instead of at attach.
- Fake-sidecar timing (release build, 3 runs): `run.attach` took 230–260
ms cold and 40–80 ms after a prepared park.
- Real Claude (claude-agent-acp 0.73.0, release build on a hosted test
VM, 3 runs each way plus one with a 180 s cgroup freeze between park and
attach):

  | | before | this PR |
  |---|---|---|
  | `run.attach` | 1691 ms mean | 212 ms mean |
| `run.attach` start → follow-up `turn.started` | 2565 ms mean | 1065 ms
mean |
  | `turn.start` → first provider output | 2261 ms mean | 2232 ms mean |
  | park preparation added to park | — | about 1450 ms |

Session recall, an authorized tool call after the rebind, and the
absence of any tool call or event from the old run all passed in every
run, including after the freeze. The prepared generation holds only the
sidecar: the Claude CLI starts at the follow-up prompt on both paths, so
a parked Runner also holds one node process instead of the whole Claude
tree.
- Hit rate: on a hosted test deployment, all 15 consecutive Claude runs
across two tasks carried identical content-addressed instruction and
skill bundle paths, so the prepared digest would have matched.
- Not run: the hosted park, claim and attach loop with real Claude, a
native MCP binding or skills with real Claude, `cargo test --release`,
smoke tests.
- Pre-existing flake:
`unconfirmed_suspension_state_becomes_recoverable_only_after_cleanup_and_suspend`
fails intermittently on clean `master` when the `hosted acpx durable::`
subset runs in parallel. It passed in both full runs.

## Risks

- **Park takes about 1.5 s longer** before it replies with real Claude.
Preparation is capped at 20 s; the host's park wait is 30 s.
- **Configuration changes:** a change between park and the next run
(registered asset paths, tools, prompt) takes the cold path. That's
safe, but saves nothing.
- **Stale environment:** a prepared process was opened with the previous
run's environment and disk state. If credential or configuration files
change on disk while the Runner is parked, the prepared process won't
see them, whereas the cold path would.
- **Failed prepare:** a park that fails after the reap leaves no live
provider. The next turn or `run.attach` starts Claude cold, as today.
- **Scope:** only ACPX Claude prepares. Other providers park exactly as
before.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`) in Claude Code, with tool use
(shell, git, GitHub CLI) and subagents.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-08 21:38:57 -08:00
DottaandClaude Opus 5.5 95bf90bd2c fix(chat): post a conversation turn's answer while an approval holds the task (#20179)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work.
> - People talk to agents in chat. The agent's final message becomes the
chat reply.
> - A chat turn can end while the task stays held. For example, the
agent resubmits a hire approval and the approval is pending.
> - The finalizer keeps the task in review for the approval
(`governed_response_waiting`). That decision is not
`conversation_turn_finished`.
> - Run completion then treats the yielded turn as a control-plane wait.
It records `presentationDecision: none` and posts no comment.
> - The person never sees the agent's answer. The chat shows nothing
after the request.
> - This pull request counts a committed conversation turn as answered
unless its own pending question or confirmation card presents it.
> - The benefit is that the person always gets the reply, whatever state
the task keeps.

## Linked Issues or Issue Description

Refs #19971 (post the full final reply). That fix covers the reply text.
This fix covers replies that were never posted.

**What happened**

In a chat, the person asked the CEO agent to change a proposed hire to a
cheaper model and send it back for approval. The agent resubmitted the
approval correctly. It called `paperclip_finish`, and Paperclip accepted
the report with "task is still waiting for approval". The run succeeded
and the task moved to `in_review`. The run event
`run.presentation.resolved` recorded `commentAction: none` (reason
`yielded_control_plane_wait` on master). The agent's final message never
reached the chat.

**Expected behavior**

A chat turn's accepted final answer is always posted to the
conversation. An approval, an execution stage or a dependency blocker
can hold the task. It must not hide the reply. Only a question or
confirmation card that the turn itself left pending presents the turn
instead of its prose.

**Steps to reproduce**

1. Open an Agent Chat with an agent. Link a hire approval in
`revision_requested` to the chat task.
2. Ask the agent to change the hire and resubmit it.
3. The agent resubmits the approval and ends the turn with a yielded
result and a response wake.
4. See that the chat shows no reply. The run is `succeeded` and its
presentation decision is `none`.

## What Changed

- `server/src/services/native-runtime/native-governance.ts`: move the
pending-card query of `pendingNativeGovernance()` into
`pendingNativeInteraction()`, with no change in behavior. Add
`conversationTurnAnswered()`. It returns false only when a pending
thread interaction (the same predicate as status arbitration) gates the
turn. It checks cards on their own, so a pending execution stage does
not hide a card.
- `server/src/services/heartbeat/run-completion.ts`: a successful
conversation run whose status decision committed now passes
`conversationTurnFinished: true` to the presentation resolver, unless
`conversationTurnAnswered()` is false. The existing
`conversation_turn_finished` path is unchanged.
- `server/src/services/heartbeat/run-completion.test.ts`: add a
regression table with a real database. A pending approval, a
revision-requested approval, a pending execution stage and a dependency
blocker now post the answer. A finished turn still posts. The turn's own
question card still owns the response, also when an execution stage is
pending.
- `doc/execution-semantics.md`: state the rule.

Other finish outcomes I checked:

- `done` or `needs_review` with a gate (`governed_gate_pending`): the
result is not yielded, so the reply was already posted.
- `blocked` (`paperclip_block`, waiting on a person or another task):
not yielded, so the reply was already posted.
- Yielded with a dependency blocker
(`durable_dependency_blocker_bound`), or with
`record_finalization_error` (`prior_status_preserved_no_live_path`,
`monitor_wait_authority_lost`): the reply was also dropped. This fix
covers them, because the rule does not depend on the reason code.

## Verification

- `cd server && npx vitest run
src/services/heartbeat/run-completion.test.ts`: 118 passed. Before the
fix, 4 new cases failed (both approval states, execution stage,
dependency blocker). The finished-turn and question-card cases passed
both before and after.
- `cd server && npx vitest run
src/__tests__/heartbeat-run-summary.test.ts
src/services/heartbeat/run-comment-selection.test.ts
src/__tests__/slack-conversation-lifecycle.test.ts
src/services/native-runtime/agent-chat-response-recovery.test.ts
src/__tests__/chat-run-milestone-governed-work.test.ts
src/__tests__/agent-conversations.test.ts`: all passed.
- `tsc --noEmit -p server`: no errors in the changed files. Unrelated
errors in this worktree come from an unbuilt local Runner package.
- An end-to-end chat eval run on the case branch is in progress. I will
add its result here.

## Risks

- Low risk. The change only affects successful Agent Chat runs with a
committed status decision. Ordinary tasks and external chat (Slack,
GitHub) keep their own paths. External chat returns before this check.
- A turn that yields while an approval is pending now posts its prose.
The approval stays pending and the task status does not change.
- One extra small read (the task row and pending gates) runs after a
conversation turn that is not `conversation_turn_finished`. It runs
after the provider turn ends, so it does not add time before the first
token.
- Previous-release state: no persisted shape changes. The fix reads
`finalizationPhase` and `finalizationReasonCode`, which the previous
release already writes. A run in flight at the deploy completes on the
new code and posts its reply. A run that completed before the deploy
keeps its recorded decision; nothing re-presents it.
- Known gap, unchanged: background presentation recovery for
conversations still requires `conversation_turn_finished` with a `done`
result. If the server restarts between the status commit and the live
presentation, a held yielded turn is not re-posted. That is a separate
follow-up.

> For core feature work, check [`ROADMAP.md`](ROADMAP.md) first and
discuss it in `#dev` before opening the PR. Feature PRs that overlap
with planned core work may need to be redirected — check the roadmap
first. See `CONTRIBUTING.md`.

## Model Used

- Anthropic Claude Opus 5.5 (`claude-opus-5-5`), with tool use (shell,
file edits, test runs) in Claude Code.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-08 23:17:36 -06:00
DottaandClaude Opus 5.5 b54317d3fb fix(native): give a preparing run's first turn the user's queued messages instead of interrupting it (#20168)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A Paperclip Runner (native) run prepares its workspace and
environment before it starts its first provider turn. This can take
about a minute.
> - A user's message that arrives during that time waits as a deferred
wake behind the run. The Interrupt control then cancelled the run before
any provider turn.
> - The cancel threw away the whole preparation. A new run had to
prepare again, so the user waited longer for the first token.
> - This pull request gives the run's first turn the queued messages.
The run seals its first-turn input immediately before `turn.start`, so
the messages are part of the prompt that the turn starts with.
> - The benefit is that the user sees the message handled in the same
run, with no cancel and no second preparation.

## Linked Issues or Issue Description

**What happened?**
A Paperclip Runner run took about 54 s to prepare (environment startup,
workspace, runtime selection). The user sent a second message 32 s into
that time and clicked Interrupt 21 s later. Interrupt cancelled the run
as `operator_interrupted` ("Interrupted to send queued messages") before
any provider turn. A new run then prepared again from the start. The
runtime-selection transaction that froze the run's input completed about
5 s before the click, and the coordinator claim came 4 s after it, so
the message could not be given to the first turn at any point in the old
code.

**Expected behavior**
When a user message arrives for a task whose current run has not started
its first provider turn, the run does not stop. The message goes into
that run's first turn. A run that is in a turn is interrupted as before.

**Steps to reproduce**
1. Assign a task to a Paperclip Runner agent with a sandbox environment,
so preparation takes a long time.
2. While the run prepares, post a second comment on the task.
3. Click Interrupt on the queued message before the run starts its
provider turn.
4. See that the run is cancelled and a new run prepares again.

**Paperclip version or commit**
Staging revision b43cccbb0.

## What Changed

- `server/src/services/native-runtime/first-turn-queued-input.ts` (new):
`claimFirstTurnQueuedInput` seals a run's first-turn input in one
transaction. It locks the task, the deferred wakes, and the run in the
same order as the queue routes. It takes the responsible user's plain
queued comments in queue order (not interaction answers, interrupt
intents, independent continuations, conversations, or other users'
messages). It renders them with source-trust sanitizing and secret
redaction, then writes a `firstTurnQueuedInput` receipt
(`paperclip.first-turn-queued-input.v1`) into the run context. A second
call for the same run returns the same messages.
`runAcceptsFirstTurnQueuedInput` is true for a running native (or
preparing native) run that has no receipt and no accepted provider turn.
- `packages/paperclip-runner/src/native-session-runtime.ts`: new
`getFirstTurnQueuedInput` option. The runner calls it immediately before
the first `session.startTurn` and appends the result to `task.prompt`
(or to `events` for a resumed-session continuation envelope). It is not
called for the disposition-only recovery turn.
- `native-session-executor.ts`: passes the claim to the runner. A failed
seal commits nothing, so the executor logs it and starts the turn
without the messages. The messages stay queued.
- `queued-comment-delivery.ts`: a message in a run's receipt counts as
delivered only after the provider accepted that run's turn
(`turn.accepted` or the provider's `turn.started`), and only if the
message was not edited after the seal. Release promotion, Send, and
later first turns use this rule. `explicit-native-continuation.ts` uses
the same rule for stopped native runs.
- `routes/issues.ts` Interrupt: when the target run has not sealed its
first turn and has no accepted turn, the route does not record interrupt
intent and does not cancel the run. The response has
`executionWait.reason = "first_turn_pending"`. Other runs are
interrupted as before.
- Queue views (`routes/issues.ts` and the wake-queue adapter) hide
messages that the active run took into its first turn. Queue edits keep
those ids on the wake, so a run that fails before acceptance still
leaves them queued.
- `run-state.ts`: the issue-control run projection includes the receipt,
so the queue poll can hide taken messages.
- `doc/execution-semantics.md`: new section "Queued messages before a
native run's first turn".

## Verification

- Red before the fix, green after:
- `pnpm --filter @paperclipai/server exec vitest run
src/__tests__/issue-queued-comments-routes.test.ts -t "first
turn|already started"`: Interrupt on a preparing run and on a claimed
native run before `turn.start` does not stop the run, and the first turn
gets both messages in order. Before the fix, both cases cancelled the
run.
- `pnpm --filter @paperclipai/paperclip-runner exec vitest run
src/native-session-runtime.test.ts -t "first-turn queued input"`: the
claim runs immediately before `turn.start`, and the first turn's prompt
ends with the queued messages. Before the fix, the claim was never
called.
- `pnpm --filter @paperclipai/server exec vitest run
src/services/native-runtime/first-turn-queued-input.test.ts`: a run that
fails before `turn.start` leaves the message queued. The next run
delivers it, and after that no later run or copied retry context takes
it again. Before the delivery rule, the "exactly once" and "accepted
then failed" cases failed.
- Safety cases that pass before and after: Interrupt still cancels a run
whose provider accepted a turn (including a run saved by the previous
release with no receipt) and a run whose first-turn input is already
sealed. The existing "explicit interrupt fallback" cases for preparing
and native runs without a responsible user still pass.
- Speed: the seal is one short transaction before `turn.start`. In the
embedded-Postgres test it took 5.5 ms. It removes a full second
preparation (54 s on staging) from the message-to-first-token time.
- Related suites: `src/modules/wake-queue`,
`explicit-native-continuation`, `issue-queued-comment-queue`,
`issue-queued-comments-routes`, `queued-comment-consumption`,
`heartbeat/run-state` (888 tests), `native-session-executor.test.ts`
(1306 tests), and the full `native-session-runtime.test.ts` (238 tests)
pass. `pnpm --filter @paperclipai/server typecheck` passes.
- Not done: no live run against a real provider or sandbox. Staging was
read only.

## Risks

- Previous-release state: a deferred wake saved by the previous release
has the same shape and is taken normally. A run saved by the previous
release has no receipt. If it is resumed before its first turn, it seals
on the new release. If its provider already accepted a turn, Interrupt
stops it as before. A run saved by the previous release while it was in
`turn.start` but before acceptance counts as unsealed, so in that short
window an Interrupt does not stop it and the message is delivered at the
turn boundary.
- Rollback: if the server rolls back after a run sealed and its turn was
accepted, the old release does not read the receipt and can deliver
those messages a second time.
- A first turn that does not use the fresh-turn path (restart
continuation, disposition-only recovery) does not call the claim. Its
messages are delivered at the turn boundary as before.
- A message that arrives after the seal waits for the turn boundary.
Interrupt stops the run as before.
- No schema migration. The receipt is a key in the run context.

## Model Used

- Claude Opus 5.5 (Anthropic), model ID `claude-opus-5-5`, used through
Claude Code with tool use (shell, file edits, test execution, read-only
browser).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-08 22:44:18 -06:00
DottaandClaude Opus 5.5 098f7d370b fix(workspaces): release an unchanged remote writer without a snapshot and wake its waiters (#20171)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A remote (sandbox) task workspace has one writer run at a time. The
writer holds the workspace until its files are saved as a snapshot
> - A run that a user comment interrupts right after its claim did no
work. No provider turn started and no command ran in the sandbox
> - Paperclip still kept its sandbox, then took a full snapshot of the
unchanged workspace. On a 2 GB repository this took 3 minutes
> - The next runs failed setup with `workspace_busy` ("ended, but its
workspace save has not settled"). The retry then waited for the
one-minute settling re-check after the save. The user's message waited
more than 4 minutes
> - This pull request releases such a writer at once, at the saved
version it started from, when durable evidence proves that it changed
nothing. It also wakes parked `workspace_busy` waiters when a hold
settles
> - The benefit is that an interrupted run no longer delays the next
message by a full workspace save

## Linked Issues or Issue Description

**What happened?**
A remote-workspace run was claimed (`native.coordinator.claim`). One
second later a board comment interrupted it (`operator_interrupted`). It
made no provider turn and no tool calls. Cancelled-workspace
preservation still retained its sandbox, and workspace recovery took a
full `remote_workspace_snapshot` of the unchanged workspace (3 minutes
for a 2 GB repository). Two follow-up runs were cancelled with
`workspace_busy`. Their retry was due during the save, and it parked for
the one-minute settling re-check after the save finished.

**Expected behavior**
A writer that provably changed nothing releases the workspace at once
and keeps its existing `snapshotId`. The next run is admitted without
`workspace_busy`. When a save does run, waiters start as soon as it
commits.

**Steps to reproduce**
1. Run a task on a remote sandbox workspace that already has a saved
version.
2. Interrupt the run with a board comment right after the claim, before
the provider turn.
3. See the full snapshot operation on the interrupted run and
`workspace_busy` on the follow-up runs.

**Paperclip version or commit**
Staging served revision b43cccbb0. Reproduced on `master` by the new
regression tests.

## What Changed

- `prepareRemoteWorkspace` records `remoteWorkspaceUnchangedBaseline`
(epoch, writer run, saved version) when preparation started from a clean
saved version and added nothing to it: no recovered attachments, no
repository outside the saved version and no workspace migration.
- New `proveRemoteWorkspaceUnchanged`
(`remote-workspace-unchanged-proof.ts`). It uses only durable evidence.
The writer run must have ended without a result, and its owner fence
must be clear. It must have no process fields, no execution, provider or
tool events (the shared `executionStartedEventPredicate`), no native
result, no runner checkpoint rows (the controller writes one before
every runner command), and no provider turn in a checkpoint that names
this run. It must have no workspace operation other than a restore or a
`workspace_finalize`/`workspace_recovery` receipt, so provisioning and
saves count as writes. Every task repository must be in the saved
version. Any missing or ambiguous evidence refuses.
- New `releaseUnchangedRemoteWorkspaceWriter`. It sets the authority to
clean with no writer, keeps `snapshotId`, marks the run reference
`saved`, logs `workspace.snapshot_skipped_unchanged` and sends the same
notifications as a final save. It never waits on a writer run that
another transaction holds (`skip locked`).
- The release applies in three places: the next run's
`reserveRemoteWorkspace`, cancelled/failed-workspace preservation
(`preserveNativeFailedWorkspace`), and `saveRemoteWorkspace` with the
final boundary. The final save returns the same version on a repeated
call, so a recovery that raced the release finishes without a capture.
- The final-save commit and the unchanged release call
`wakeWorkspaceBusyWaitersInTx`. A parked waiter whose holder was that
writer is due at once, not at the one-minute settling re-check.
- `doc/execution-semantics.md` describes the release and the wake.

## Verification

- `pnpm --filter @paperclipai/server exec vitest run
src/services/remote-workspace-unchanged-release.test.ts` (13 tests,
embedded Postgres, real archive capture):
- Staging shape (claim, then interrupt with no provider work): the next
reservation is admitted. No snapshot operation is recorded. The run
reference is `saved` at the old `snapshotId`. Red on `master`: "The
workspace still has an unfinished writer or save operation."
- A later final save, behind the `workspace_finalize` receipt that
production finalizers publish first, returns the same version with no
capture, a repeat returns it again, and a parked waiter becomes due now.
Red on `master`: a new snapshot is captured.
- Negatives that still do a full save: `turn.started`, `provider.event`,
`tool.execution.started`, `native.process_start_requested`, a
provisioning command that wrote into the workspace, a recorded process,
a live owner fence, and a writer that is still running.
- Upgrade safety: no baseline (a writer prepared by the previous
release), a baseline without its saved version, and a baseline with
another schema each keep the full save.
  - A full final save wakes the parked waiter. Red on `master`.
- `native-cancelled-workspace-preservation.test.ts`: a new case shows
that a cancelled writer with a baseline and no work is released, with no
retained lease and no recovery action. Red on `master` (the
restore-recovery hold was recorded). The other 44 cases pass unchanged.
- I also ran the related remote-workspace, workspace-recovery, native
preservation and run-dispatch suites locally.

## Risks

- A false "unchanged" verdict would drop unsaved files. The proof
requires a positive baseline from preparation and refuses on any write
record. Only `.paperclip-runtime` (excluded from snapshots) is written
by runner staging before a process starts. A deploy that lands mid-run
keeps the full save, because the proof reads only durable rows.
- Previous-release state: a writer prepared without the baseline (or
with an unknown or partial one) keeps today's full save. An older server
ignores the new metadata key.
- Waiters now start sooner after a final save. Arrival order among
waiters is unchanged (the park check still admits the earliest first).
- Other ways a hold can settle (for example a stop receipt that turns an
unused reservation free) still rely on the one-minute re-check.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), Anthropic, used in Claude Code
with tool use (shell, file edits and a read-only browser for staging
evidence).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] All Paperclip CI gates are green
- [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-08 22:37:52 -06:00
DottaandClaude Opus 5.5 fa7950121d fix(native): move an interrupted bootstrap's session aside on the run's own created sandbox lease (#20154)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - When restart recovery proves a remote bootstrap reached no provider
work, it bootstraps the same run again in the same sandbox. Before
relaunching, it stops the interrupted runner (#20103)
> - The relaunch starts a fresh controller record, whose command ids
restart at `command_prp_00000001`. The sandbox still held the
interrupted runner's journal, which had already recorded that command id
with different data
> - The relaunched runnerd rejected it ("commandId was reused with
different command data") and exited while waiting for `run.prepare`.
Every same-run retry collided the same way until the retry budget ran
out and the task blocked
> - The proven interrupted-bootstrap session move (#20103) ran only for
a resumed lease. A same-run retry on a per-turn sandbox reuses the run's
own created lease, so nothing moved the interrupted session aside
> - This pull request applies that same proof-gated session move on the
run's own created lease
> - The benefit is that a same-run bootstrap retry starts its runner on
a clean journal, and the old journal is kept as evidence

## Linked Issues or Issue Description

Refs #20103

**What happened?**
Daytona per-turn restart-chaos M1 rerun w-20261109T013733-s9501 (master
8e3b64a257, image 34bc12bf):
- **t10 (codex M1):** the codex subtask's run `f8a8f483` went through
eleven same-run bootstrap retries between 01:56 and 02:07.
- Each relaunched runnerd logged `paperclip-runnerd: commandId was
reused with different command data` and exited about 12 s later while
waiting for `run.prepare`.
- The run then failed `native_session_retry_exhausted` ("Provider
startup failed on 3 attempts before any provider work began"). The
subtask blocked, and so did the parent.
- **t02:** the same "runnerd exited while waiting for run.prepare"
pattern appeared on retry run `2e13568f`.

**Expected behavior**
A same-run bootstrap retry moves the interrupted session aside, keeping
it as a `.bootstrap-restart-<time>-<uuid>` sibling, and claims a fresh
session root before relaunching. The relaunched runner then cannot see
the interrupted attempt's command ids. This already happened on a
resumed lease and now also happens on the run's own created lease.

**Steps to reproduce**
1. Let a remote bootstrap reach the runner (it journals
`command_prp_00000001`), then restart before any provider work.
2. Recovery bootstraps the same run again in the same sandbox. Before
this change, the relaunched runnerd sees the old journal, rejects the
reused command id and exits, and every retry repeats this.

**Paperclip version or commit**
8e3b64a257 (wave). Branch rebased on current master.

## What Changed

- `native-session-executor.ts`: the created-lease branch of remote
harness preparation now applies the resumed branch's proven restart. It
runs when all of these hold:
  - the session is `not_suspended` and belongs to this run;
  - there is no backup;
  - the claim is `bootstrap_incomplete`;
- the stale-runner stop proved the interrupted runner gone
(`hasRemoteBootstrapRestartProof`).

It then runs `moveInterruptedBootstrapSessionAside` and
`claimUntouchedRemoteSession`. If the move or the claim fails, it throws
`runner_harness_state_mismatch: created_not_suspended` and changes
nothing.
- An earlier revision of this PR archived only the `runner` directory.
Review showed that would leave a session the existing claim cannot
reopen on a resumed lease, so that revision was replaced.
- On a fresh command namespace: moving the session aside removes every
id the relaunched runner could see, so a separate namespace isn't
needed. It would also change the persisted command id format that saved
controller state depends on.
- `native-session-executor.test.ts`: the existing "bootstraps only an
untouched provider session" matrix runs the real move and claim scripts
against a temporary filesystem. It gains two created-lease cases:
- an interrupted bootstrap: the old session is kept as a sibling and a
fresh root is claimed;
  - a symlinked parent: refused, and nothing moves.

## Verification

- Red/green: both created-lease cases fail on master and pass with the
change. The resumed cases from #20103 are unchanged: 42 cases in the
matrix pass.
- `vitest run` over the restart-recovery and bootstrap test files and
`native-session-executor.test.ts`: 7 files, 1540 tests passed (14
skipped).
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck` (`server`): passed.
- The collision itself happens in runnerd (the production log shows it
on every retry). The live check is a Daytona per-turn K2/K4 rerun.

## Risks

- Low risk. The move reuses the resumed path's proof gates, its symlink
checks and its whole-session move, which keeps the session and never
deletes it. The new branch acts only when every gate holds; otherwise
preparation continues exactly as before.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), via Claude Code with tool use
(shell, file edits, test execution).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-08 21:06:26 -06:00
DottaandClaude Opus 5.5 510746c682 fix(native): restart a remote run whose controller never sent its runner a command (#20153)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A follow-up run on a remote sandbox inherits the previous run's
session checkpoint at admission, rebound to the new run's identity
> - A remote runner receives work only through the controller's Postgres
checkpoint, which the controller writes before every command. A run with
no checkpoint rows, no runner events and no recorded runner process
never sent its runner anything
> - Restart recovery still read the rebound admission checkpoint's
provider session id as provider evidence, and classified such a run
`reattach_remote_runner`. The executor then found the root still owned
by the previous run and failed with
`native_remote_recovery_lease_mismatch: stage=runner_verification
field=identity_run_id`
> - This pull request classifies that run as an incomplete bootstrap,
and lets the executor start it from the previous owner's settled root
> - The benefit is that a follow-up interrupted before its runner ever
got a command restarts on its own

## Linked Issues or Issue Description

Refs #20137

**What happened?**
Daytona per-turn restart-chaos M1 rerun w-20261109T013733-s9501 (master
8e3b64a257, image 34bc12bf), t02 (codex M1 parent):
1. Wake run `a867cb18` was admitted at 01:48:31 with a rebound
checkpoint inherited from run `dfeddafa`: identity of the new run,
`cursor: null`, no terminal turns, no active turn.
2. It recorded `native.process_start_requested` at 01:48:36, then a K4
hold froze the control plane.
3. At 01:53:11 recovery classified it `reattach_remote_runner`
(`hasCheckpoint: true`, `hasProviderEvidence: true`, from the rebound
checkpoint), although the run had no `native_runner_checkpoints` rows,
no runner-originated events and no recorded process identity.
4. The executor found the session root still owned by `dfeddafa` and
failed with `native_remote_recovery_lease_mismatch:
stage=runner_verification field=identity_run_id`. The task needed a
Retry.

**Expected behavior**
A remote run whose runner provably never received a command restarts its
bootstrap. The executor treats the previous owner's root as it would for
any follow-up start.

**Steps to reproduce**
1. Claim a remote sandbox follow-up that recorded
`native.process_start_requested` but has no controller checkpoint rows,
no runner events and no `native.process_identity_recorded`, with only
the admission-rebound session checkpoint.
2. Restart. Before this change, recovery claims
`reattach_remote_runner`, and the executor fails with `identity_run_id`.

**Paperclip version or commit**
8e3b64a257 (wave). Branch rebased on current master.

## What Changed

- `native-restart-recovery.ts`: the new
`remoteRunnerNeverReceivedCommands` condition.
- It applies to a remote sandbox run (not a plugin task) with a prepared
remote workspace when all of these hold:
    - no durable controller record, and no staged attachment;
- only the admission-rebound checkpoint (or none), and no provider
process events;
- no runner-originated events, and no
`native.process_identity_recorded`;
    - no run process fields;
- the same claimed and dead previous-controller conditions as
`remoteRunnerNeverLaunched`.
- It yields `bootstrap_incomplete` with the reason
`remote_runner_never_received_commands`, and does not count the rebound
checkpoint as this run's checkpoint.
- `native-session-executor.ts`:
- a `bootstrap_incomplete` claim requires the incomplete-bootstrap proof
only when the root carries this run's own identity;
- a root still owned by the previous run takes the normal previous-owner
path, and may retire a finished previous owner, as any follow-up start
does.
- Policy change, called out for review: a claimed remote run that
recorded only `native.process_start_requested` was held as
`ambiguous_remote_recovery_evidence`. Under the conditions above it now
bootstraps again.
- The controller writes every command to the Postgres checkpoint before
sending it, so with no checkpoint rows no command reached any runner,
and no provider work can exist.
- A runner process that was spawned but never commanded is stopped
before the new bootstrap by the existing stale-runner stop.
- A recorded process identity, an adapter invocation, a runner event,
process fields or a provider session still hold the run.
- Tests:
- `native-runner-restart-recovery.integration.test.ts`: the
classification for a follow-up with an inherited checkpoint and for a
first run without one, plus a held case when a runner process identity
was recorded. The old held expectation for "a runner process start was
requested" moved here;
- `native-recovered-owner-followup.test.ts`: the executor admitting a
`bootstrap_incomplete` follow-up from the previous owner's settled root.

## Verification

- Red/green:
- On master, the classification test claims `reattach_remote_runner`, as
in production. With the change it claims `bootstrap_incomplete` with
`remote_runner_never_received_commands`.
  - A recorded runner process identity keeps the run off this path.
  - The executor test is admitted with the change. On master it fails.
- `vitest run` over the restart-recovery, bootstrap, recovered-owner and
failed-workspace-recovery test files and
`native-session-executor.test.ts`: 9 files, all passing after the policy
test moved; `native-runner-restart-recovery.integration.test.ts` alone:
144 passed (14 skipped).
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck` (`server`): passed.

## Risks

- Low risk:
- The new path requires positive proof that nothing reached a runner: no
controller record, no runner events and no recorded process. Any of
these keeps the existing classification.
- In the executor, a root that carries this run's identity still needs
the full bootstrap proof.
- A root that carries the previous run's identity goes through the same
previous-owner verification as any follow-up start.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), via Claude Code with tool use
(shell, file edits, test execution).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-08 21:06:21 -06:00
DottaandClaude Opus 5.5 3eea8b87bd fix(native): settle a finished owner whose journal holds a definitively answered command (#20148)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Before a per-turn follow-up starts a new runner, it retires the
previous turn's finished owner. Retirement requires that owner's
controller journal to be settled: every command answered, then a run
terminal
> - A restart can cut off a continuation turn. The recovered runner
answers that `turn.start` with `failed` and the nested code
`execution_indeterminate` ("it will not execute twice"), and the run
continues on a later turn to an accepted result
> - Retirement counted only `completed` commands as answered. A finished
run whose journal held that answered `turn.start` never counted as
settled, so the follow-up failed with
`retirement_refused=journal_commands_unsettled(turn.start.failed)` and
needed a Retry
> - This pull request counts definitive `failed` and `rejected` answers
as settled, except for runner lifecycle commands. An unknown-outcome
`turn.start` counts as settled only once a later `turn.start` completed,
which shows the run moved past it. Every other unknown or pending
command stays unsettled
> - The benefit is that a follow-up after a restart-interrupted, then
finished, run continues on its own

## Linked Issues or Issue Description

Refs #20140

**What happened?**
Local restart-chaos M1 K4/K6 rerun w-20261109T003126-s9701 (master
8e3b64a257), t07 (claude C1, K6):
- The previous run `9cb2c0b3` lost a continuation turn to a restart. The
runner answered that `turn.start` as `failed` with `result.result.code:
"execution_indeterminate"`.
- After the next restore it ran a new continuation to an accepted
result, and the run terminal was committed at 00:48:18.
- A hard kill then landed before the runner suspended, and recovery
finalized the result.
- Follow-up `372991c8` failed at 00:48:37 with
`runner_state_identity_mismatch:
prior_owner_terminal_state_indeterminate;
retirement_refused=journal_commands_unsettled(turn.start.failed)`.

**Expected behavior**
A command the runner definitively answered (`failed` or `rejected`)
leaves nothing outstanding, so it counts as settled. A `turn.start` with
an unknown outcome is never executed again by the runner, so once a
later `turn.start` completed, the run has moved past it and it also
counts as settled. The follow-up then retires the finished owner and
continues.

The following still count as unsettled:
- an unknown-outcome `turn.start` with no later completed turn;
- any other unknown-outcome command;
- a `pending` command;
- a failed runner lifecycle command, such as a failed `runner.suspend`
(the runner did not suspend).

**Steps to reproduce**
1. Finish a per-turn run whose controller journal holds a `turn.start`
answered `failed`, followed by a committed run terminal.
2. Start a follow-up. Before this change, retirement refuses with
`journal_commands_unsettled(turn.start.failed)`.

**Paperclip version or commit**
8e3b64a257 (wave). Branch rebased on current master.

## What Changed

- `remote-warm-session-recovery.ts`: the new
`unsettledControllerCommands` decides which commands are settled.
`isSettledRemoteWarmControlState` uses it.
  - `completed` is settled.
- An unknown outcome (raw `indeterminate`, or `failed` with
`execution_indeterminate` at `result.code` or `result.result.code`) is
settled only for a `turn.start` with a later completed `turn.start`.
- Other `failed` or `rejected` answers are settled, except for
`runner.suspend`, `runner.drain` and `runner.shutdown`.
- `native-session-executor.ts`: the retirement refusal message lists
unsettled commands with the same rule.
- `native-recovered-owner-followup.test.ts`: a red/green test whose
journals are in real lifecycle order.
- Admitted: a `turn.start` answered `failed` or `rejected`; a superseded
unknown-outcome `turn.start` in the runner's stored nested shape; a
superseded raw `indeterminate`.
- Held: the same unknown-outcome answer with no later completed turn; a
failed `runner.suspend`.

## Verification

- Red/green: on master, the admitted cases fail with exactly the t07
error. With the change they are admitted. The held cases stay held. If
only `result.code` is checked, the unsuperseded case fails.
- `vitest run` of `native-recovered-owner-followup.test.ts`,
`remote-warm-session-recovery.test.ts` and
`native-session-executor.test.ts`: 3 files, 1403 tests passed.
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck` (`server`): passed.

## Risks

- Low risk. Definitive answers to non-lifecycle commands, and
unknown-outcome turn starts that a completed later turn superseded,
become settled.
- The run terminal requirement, post-terminal live-work checks, and
every lifecycle and process proof are unchanged.
- The same rule now also applies to remote warm recovery's settled
check, where a definitively answered command is equally finished.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), via Claude Code with tool use
(shell, file edits, test execution).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-08 20:47:05 -06:00
DottaandClaude Opus 5.5 cedf335c98 fix(native): a failed terminal followed by an active restart continuation is not a permanent failure (#20149)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - When a restart loses a native run's active turn, the run records
that turn as failed with `provider_turn_lost_on_restore` and continues
on a same-conversation continuation turn
> - Restart recovery blocks a run as
`provider_checkpoint_permanently_failed` when its checkpoint carries a
failed run terminal and no pending restart interruption
> - While a continuation is running, the checkpoint keeps the lost
turn's failed run terminal and names the continuation as the active
turn. The pending-interruption check returns nothing once a turn is
active
> - So a second restart during the continuation read the run as
permanently failed, blocked replay, and needed the board
> - This pull request treats that failed terminal as the restart loss it
records whenever an active turn follows a restart-lost terminal turn
> - The benefit is that runs survive repeated restarts during their
continuations, including M1 parents and their subtasks

## Linked Issues or Issue Description

Refs #20148

**What happened?**
Local restart-chaos M1 K4/K6 rerun w-20261109T003126-s9701 (master
8e3b64a257), t05 (claude M1 parent):
1. Run `e1e37dab` lost turns to restarts at 00:41:32 and 00:47:53. Each
time it continued, and the third continuation `turn_lab_92b03dc7…` was
active.
2. At 00:48:29 the next restart blocked it:
`native_restart_recovery_blocked` /
`provider_checkpoint_permanently_failed`, with replay blocked.
3. Its saved checkpoint held `terminal.runTerminalState: "failed"` (from
the lost turn), `activeTurnId` set to the continuation, and a last
terminal turn fingerprinted `provider_turn_lost_on_restore`.

Its codex/ACPX subtask's run `f9b10d06` was blocked in the same pass
with the same shape, and its continuation had already proposed a
semantic result. Both stayed blocked. The parent's Retry was held on the
blocked child.

**Expected behavior**
A failed run terminal that records a restart loss, followed by an active
continuation turn, is not a permanent failure. Recovery claims
`resume_dead_runner`. The runtime then reconciles the active turn, and a
held result settles a lost turn as completed. A real provider failure
followed by a later turn still blocks.

**Steps to reproduce**
1. Checkpoint a run whose last terminal turn is a restart loss, whose
`terminal` is failed, and whose `activeTurnId` is a later continuation
(optionally with a semantic result).
2. Claim restart recovery. Before this change it blocks with
`provider_checkpoint_permanently_failed`.

**Paperclip version or commit**
8e3b64a257 (wave). Branch rebased on current master.

## What Changed

- `contracts/native-session-backend.ts` (runner): the new
`nativeRestartContinuationInFlight` is true when all of these hold:
  - the checkpoint has an active turn;
  - its last terminal turn is a different turn;
- that turn's fingerprint is a failed, result-less, recoverable
`provider_turn_lost_on_restore`.
- `native-session-runtime.ts`: recovery clears that stale failed
terminal for a continuation in flight, as it already does for a
checkpointed interruption. Before, it threw
`provider_checkpoint_failed_terminal` before it reconciled the active
turn.
- `native-restart-recovery.ts` (server): `checkpointFailed` now also
requires that no restart continuation be in flight. It uses the same
contract function through the vendor boundary.
- `native-session-runtime.test.ts`: an end-to-end recovery test. A
checkpoint with the stale failed terminal and an active continuation
resolves on the continuation's result without starting a new turn.
- `native-runner-restart-recovery.integration.test.ts`:
  - a codex case of the stale-terminal shape as saved in production;
  - an ACPX case with a held result;
- a held case where an active turn follows a real provider failure
(`model_not_found`).

## Verification

- Red/green: on master, the stale-terminal case is blocked with
`provider_checkpoint_permanently_failed`. With the change it claims
`resume_dead_runner`. The real-failure case stays blocked on both.
- Red/green (runtime): without the runtime change, the end-to-end test
throws `provider_checkpoint_failed_terminal`. With it, the run
completes.
- `vitest run` over the restart-recovery and failed-workspace-recovery
test files in `server/src/services/native-runtime`: 5 files, 305 tests
passed (14 skipped).
- `vitest run` over the runner restart, recovery, continuation and
terminal test files: 9 files, 385 tests passed.
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck` (`server`) and `pnpm
run typecheck:typescript` (`packages/paperclip-runner`): passed.

## Risks

- Low risk. The exception applies only when the recorded failure is
itself a recoverable restart loss and a later turn is in flight. Every
other recovery gate is unchanged: the provider-attempt budget,
controller takeover and process proofs.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), via Claude Code with tool use
(shell, file edits, test execution).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-08 20:28:12 -06:00
DottaandClaude Opus 5.5 a0b9895bbd fix(native): roll back an undelivered warm attach rotation once its runner is proven dead (#20146)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A follow-up turn can attach to the previous turn's warm local
runner. The transport first rotates authority: it archives the previous
epoch (suspended runner state and settled controller) under
`authority-epochs/` and writes a new control plane that holds only the
`run.attach` command
> - A hard kill in that window, before the runner connects, leaves the
root with the new control plane and no `runner/runner-state.json`.
Restart recovery proves the warm runner dead and classifies the run
`resume_dead_runner`
> - The executor saw a root with the run's own identity and no runner
state, called its authority indeterminate, and quarantined it. The run
failed with `runner_state_identity_mismatch: authority_indeterminate`
and needed a Retry
> - The attach was never delivered, and the runner that would have
received it is proven dead, so it cannot have taken effect. The root's
real authority is still the archived previous epoch
> - This pull request rolls back such an undelivered rotation, so the
follow-up continues from the previous turn
> - The benefit is that a restart in the first second of a warm
follow-up no longer needs a Retry

## Linked Issues or Issue Description

Refs #20140

**What happened?**
Local restart-chaos K13 regression storm w-20261108T235957-s9401 (master
4420a5adcf), task t22 (codex C1):
1. Follow-up run `7b1b1650` started at 00:05:56 as a warm attach to the
previous run's runner (pid 11436).
2. The transport archived the previous epoch (`313ee831`: runner
`suspended`, every command completed) to `authority-epochs/epoch-2c2a…`.
It wrote a new control plane with `run.attach` pending,
`connectionCount` 0, no events, no delivery counts and
`bootstrapHistory.adopted` false.
3. A K1 at 00:05:57 killed the server before the runner connected.
Recovery stopped pid 11436 and claimed `resume_dead_runner`.
4. The executor found `runner/` non-empty (provider state) but without
`runner-state.json`, returned `authority_indeterminate`, and quarantined
the root. A Retry ran fresh.

**Expected behavior**
When a `resume_dead_runner` claim proves the local runner gone and the
run's own root holds only an undelivered `run.attach` over an archived
suspended epoch, recovery restores that epoch and continues. If delivery
is uncertain (any connection, event, delivery count or other command) or
there is no dead-runner claim, it still fails closed.

**Steps to reproduce**
1. Start a warm follow-up and hard-kill the control plane after the
authority rotation, before the runner connects.
2. Restart. Before this change, the follow-up fails with
`runner_state_identity_mismatch: authority_indeterminate`.

**Paperclip version or commit**
4420a5adcf (wave). Branch rebased on current master.

## What Changed

- `native-session-executor.ts`: the new
`rollBackUndeliveredAttachRotation` runs only for a `resume_dead_runner`
claim on this run with a local runner. It acts only when all of these
hold:
  - the active control plane is this run's own exact identity;
  - its only command is a pending `run.attach`;
- `connectionCount`, `ackedSourceSeq` and the delivery counts are 0,
there are no committed events, and it was never adopted and issued no
credentials;
  - it has no warm, staged or completed transition;
  - there is no `runner/runner-state.json`;
- the latest archived epoch is named by its identity's digest, shares
the runner instance, lease and session, and holds a `suspended` runner
state for that identity.

It moves the undelivered control plane to `continuity-breaks/` as
evidence, then puts the epoch's control plane and runner state back. The
executor then sees the previous owner and takes the normal
suspended-previous-owner path.
- `native-recovered-owner-followup.test.ts`: a red/green test of the
undelivered rotation. A possibly delivered attach (`connectionCount` 1)
and a missing dead-runner claim both still fail closed.

## Verification

- Red/green: on master, the undelivered case fails with exactly the t22
error. With the change, the follow-up is admitted: the previous control
plane is restored, `authority-epochs` is gone, and the undelivered
control plane is kept under `continuity-breaks`. The two fail-closed
cases fail on both.
- `vitest run` of `native-recovered-owner-followup.test.ts`,
`native-session-executor.test.ts`,
`native-runner-restart-recovery.integration.test.ts` and
`native-session-root-entries.test.ts`: 4 files, 1508 tests passed (14
skipped); after rebasing onto #20140,
`native-recovered-owner-followup.test.ts` again: 65 passed.
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck` (`server`): passed.

## Risks

- Medium-low risk. The rollback changes durable state, but only for a
closed shape that proves the attach never reached any runner, after
recovery proved the runner process dead.
- A crash in the middle of the rollback leaves a root that still fails
closed, as before this change.
- The test exercises admission up to tool authority, not a full
real-runnerd turn. A chaos rerun of the K1 warm-follow-up window is the
remaining check.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), via Claude Code with tool use
(shell, file edits, test execution).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-08 19:36:44 -06:00
DottaandClaude Opus 5.5 bd97a3e6f7 fix(native): retire a finished per-turn owner past its own quarantined interrupted bootstrap (#20140)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A follow-up turn on a per-turn session must retire the previous
turn's runner state before it starts a new runner. Retirement proves the
previous owner finished, and it also proves that every quarantined copy
of that session root is settled
> - If restart recovery interrupts a run's own start (for example a hard
kill during `session.open`), recovery proves the half-started bootstrap
held no provider work, quarantines that root, and bootstraps the same
run again. The quarantined copy keeps the run's identity
> - After that run finished, retirement checked the old bootstrap copy
as if it were a finished owner. An unfinished `session.open` (or an
opened session without a turn) is never "settled", so the follow-up
failed with `runner_state_identity_mismatch:
prior_owner_terminal_state_indeterminate` and needed a Retry
> - This pull request skips a quarantined copy of the same owner when
the same bootstrap proof that let recovery quarantine it still holds
> - The benefit is that a follow-up after a restart-interrupted start
continues on its own

## Linked Issues or Issue Description

Refs #20137

**What happened?**
Local restart-chaos K13 regression storm w-20261108T235957-s9401 (master
4420a5adcf): 102 of 105 tasks passed. Two of the three failures share
this cause.

- **t58 (codex C1):**
- A K1 at 00:15:42 interrupted run `78dd97f1` during its first
`session.open`. Recovery quarantined that root (`run.prepare` completed,
`session.open` pending, no events) and bootstrapped again.
- The run then completed. A second K1 hit 190 ms after its result was
accepted, and recovery finalized the result.
- Follow-up `def668a6` failed with `runner_state_identity_mismatch:
prior_owner_terminal_state_indeterminate;
retirement_refused=quarantine_journal_commands_unsettled(session.open.pending)`.
- **t67 (claude C1):** the same pattern. The quarantined copy of run
`990936c0` holds a completed `session.open` with only session-open
events and no turn, so the refusal was
`quarantine_journal_terminal_unsettled`.

Both copies are in the kept instance's quarantine directory under the
previous run's own identity. Each Retry succeeded.

**Expected behavior**
A quarantined copy of the finished owner's own earlier bootstrap that
provably held no provider work does not hold the follow-up. Retirement
proceeds and the follow-up starts without a Retry.

**Steps to reproduce**
1. Let a per-turn run's first bootstrap be quarantined after a restart
(the run bootstraps again and finishes).
2. Start a follow-up turn.
3. Before this change, retirement refuses with
`quarantine_journal_commands_unsettled(session.open.pending)` or
`quarantine_journal_terminal_unsettled`.

This is not a code regression. The quarantine-copy check dates from
#19061. Today's recovery fixes let more interrupted starts bootstrap
again within the same run instead of blocking, and each such restart
leaves this kind of copy behind.

**Paperclip version or commit**
4420a5adcf (wave). Branch rebased on current master.

## What Changed

- `native-session-executor.ts`: the quarantine loop in
`inspectFinishedPerTurnRunnerdOwner` skips a copy when both of these
hold:
  - its durable identity matches the finished owner exactly;
- `runnerdStateProvesIncompleteBootstrap` holds for it. That is the
proof restart recovery uses before it quarantines an interrupted
bootstrap: no provider turn, and for a local runner, its journal and
processes proven gone.
  
  Every other copy still has to pass the settled-projection proof.
- `native-recovered-owner-followup.test.ts`: a red/green test covering
both cases:
  - an interrupted bootstrap copy is retired past;
  - a copy that had already issued a turn still holds the follow-up.

## Verification

- Red/green: on master, the new admitted case fails with exactly the t58
error. With the change it is admitted. The turn-issued copy is refused
on both.
- `vitest run` of `native-recovered-owner-followup.test.ts`,
`native-session-executor.test.ts` and
`native-runner-restart-recovery.integration.test.ts`: 3 files, 1504
tests passed (14 skipped).
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck` (`server`): passed.

## Risks

- Low risk. The skip reuses the existing bootstrap-incomplete proof and
requires an exact identity match, so a foreign or work-holding copy
still blocks. Nothing is deleted; the copy stays in quarantine.
- Not covered: t22 in the same storm, a follow-up whose own unconnected
`run.attach` root was hit by a K1 (`authority_indeterminate`), has a
different shape and is tracked separately.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), via Claude Code with tool use
(shell, file edits, test execution).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-08 19:21:32 -06:00
DottaandClaude Opus 5.5 8e3b64a257 fix(runner): an unknown agent id says which id and how to find the right one (#20135)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Agents delegate by creating subtasks through Paperclip's tools. A
tool error must tell the agent how to recover, or it improvises
> - Restart chaos t06 ended a delegation with four children instead of
two
> - Evidence showed no replay: the model built an assignee id from two
real agents' halves and got a bare `paperclip_runner_agent_not_found`
four times
> - To debug the error it created "diagnostic test" subtasks without an
assignee. Those succeeded and were left behind as duplicates
> - This pull request makes the error say which id was not found, which
real agents it most resembles, and to call `list_agents`
> - The benefit is that an agent corrects the id instead of creating
throwaway tasks

## Linked Issues or Issue Description

Refs #19831 (durable ownership plan). Restart chaos wave
`w-20261108T225520-s9501`, task t06 (claude, M1, K2 drain).

**Problem:** parent run 2751fe3c created Part 1 correctly. For Part 2 it
passed `assigneeActorId: 0cb62ac2-742d-442c-acc9-d21dd936e716`: Chaos
claude's prefix with Chaos codex's suffix.
- Four `create_task` calls (keys `part2`, `part2` again, `-v2`,
`-backlog`) each returned only `paperclip_runner_agent_not_found`. One
of them crossed the K2 drain and failed the same way as the one before
it.
- The model then created "Part 2 06f119cf test" (`-noassignee`) and
"Part 2 06f119cf" (`-title-test`), both described as "diagnostic test -
will be removed/ignored". With no assignee they defaulted to the caller.
They stayed in backlog.
- Only after `list_agents` did it create the real Part 2.
- Same-key replays were never the issue: `create_task` stores the
`idempotencyKey` as the child's `origin_id`.

## What Changed

-
`server/src/services/native-runtime/paperclip-runner-tool-authority.ts`:
- `create_task` (assignee) and `get_agent` now fail with
`paperclip_runner_agent_not_found: no agent in this company has id
"<id>". Closest ids: <name> (<id>), …. Call list_agents and copy a valid
id exactly; nothing was created or changed.`
- Suggestions are up to three agents of the caller's company whose ids
share at least eight leading or trailing characters with the missing id.
Another company's agents are never named.
- The recoverable-read check matches the error code before the `:`
details, so a recovered `get_agent` read still returns the error as a
tool result.

## Verification

Red/green:
- `paperclip-runner-tool-authority.test.ts` "names a missing agent id
and its closest real agent instead of a bare code (restart chaos t06)".
It uses t06's spliced id, with a second agent "Chaos claude" in the
company.
  - On master: the error is the bare code (red).
- With this PR: both `create_task` and `get_agent` name the id, `Chaos
claude (0cb62ac2-…)` and `list_agents`, and no task is created.
- The file passes (42 tests), including the existing foreign-company
assignee rejection. `tsc --noEmit -p server` is clean.

## Risks

- One extra read of the company's agents, only on the failure path.
- The message names agents of the caller's own company, which
`list_agents` already returns to it.
- No schema or persisted state change.

## Model Used

Anthropic Claude Opus 5.5 (`claude-opus-5-5`), via Claude Code, with
tool use (shell, file editing).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above (#20069, #20108)
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes (no
user docs affected)
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green (pending)
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
(pending)
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-08 18:26:11 -06:00
DottaandClaude Opus 5.5 e194e1930b fix(native): prove a drained remote start had no turn when its controller only read the goal (#20137)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - When a graceful drain suspends a remote native run during its start,
restart recovery may bootstrap it again only if the run's Postgres
controller checkpoint proves that no provider turn exists
> - That proof accepted `run.prepare`, `session.open` and session-open
events
> - A codex controller reads the session goal (`session.goal.get`, a
read-only query) right after it opens the session and before it sends
the first turn. A drain that lands in that window leaves a third command
in the checkpoint
> - The proof refused any checkpoint with a third command. Recovery
called it `ambiguous_remote_recovery_evidence` and blocked replay, so
the task waited for the board
> - This pull request lets the proof accept the runner maintenance and
read-only session commands that already count as maintenance in the
local proof, and reads every recorded command
> - The benefit is that a run drained in the first seconds of a per-turn
Daytona start bootstraps again on its own

## Linked Issues or Issue Description

Refs #20136

**What happened?**
Daytona per-turn restart-chaos wave w-20261108T225520-s9501 (master
15b987d9b8), task t06, subtask CHA-13, run `687578c9`:
- A K2 graceful drain at 23:11:55.096 suspended the run 4 s into its
start.
- Restart recovery at 23:12:03 blocked it as
`native_restart_recovery_blocked` /
`ambiguous_remote_recovery_evidence`, and replay was blocked as
`preserve_without_replay_v1`.
- The subtask rested `blocked`. Its parent CHA-10 then failed R1.

I decrypted the run's controller checkpoint with the kept instance's
local key:
- **commands:** `run.prepare` (completed), `session.open` (completed),
`session.goal.get` (completed, written 18 ms before the drain);
- **events:** `session.started`, `session.capabilities.updated`,
`session.goal.snapshot` ×2;
- **cursor:** `ackedSourceSeq` 4, `commandCount` 3.

No turn was ever sent. `nativeRunnerCheckpointRemoteBootstrapProof`
rejected the checkpoint because only the parts `command:1` and
`command:2` were allowed, and `runnerdStateHasNoProviderTurn` accepted
only bootstrap commands.

**Expected behavior**
A controller record that holds only a completed bootstrap, read-only
session commands and session-open events proves that no provider turn
exists. The run bootstraps again (`remote_session_opened_without_turn`)
without a Retry.

**Steps to reproduce**
1. Start a codex run on a remote sandbox and drain the control plane
after `session.open` completes and `session.goal.get` is issued, but
before `turn.start`.
2. Restart. Before this change, recovery blocks the run with
`ambiguous_remote_recovery_evidence`.

**Paperclip version or commit**
15b987d9b8 (wave). Branch rebased on current master.

## What Changed

- `native-runner-checkpoint.ts`
(`nativeRunnerCheckpointRemoteBootstrapProof`):
  - accepts up to 8 `command:N` parts and reads them all in order;
- requires the stored command parts to match the cursor's
`commandCount`, so no command can be missing;
  - keeps the 16-event bound.
- `native-bootstrap-proof.ts` (`runnerdStateHasNoProviderTurn`): besides
`run.prepare` and `session.open`, also accepts the existing
`RUNNER_MAINTENANCE_COMMAND_TYPES`:
  - `runner.drain`, `runner.suspend` and `runner.shutdown`;
  - `session.snapshot` and `session.goal.get`.
  
The local opened-session proof already treats these as maintenance; none
of them sends provider input.
- `native-runner-restart-recovery.integration.test.ts`:
- a red/green test with the exact CHA-13 shape, covering both the
recovery claim and the executor's restored-checkpoint proof;
  - a held case where a `session.goal.set` follows the read.

## Verification

- Red/green: on master, the new test is blocked. With the change,
recovery claims `bootstrap_incomplete` with the reason
`remote_session_opened_without_turn`, and the executor's proof agrees.
- Existing held cases still hold: a turn was issued, a turn event was
committed, an acknowledged event is missing, a provider turn event was
projected, and the new `session.goal.set` case.
- `vitest run` over the native bootstrap, restart-recovery and
runner-checkpoint test files and `native-session-executor.test.ts`: 9
files, 1542 tests passed (14 skipped).
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck` (`server`): passed.

## Risks

- Low risk:
- The added commands are the same maintenance and read-only set the
local proof already accepts.
- Any turn command, any non-session-open event, a missing acknowledged
event, or a command count that differs from the stored parts still fails
closed.
- Not changed: when replay was already blocked and the saved work was
later recovered, the task still waits for a board Retry. This fix keeps
that block from happening for this shape.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), via Claude Code with tool use
(shell, file edits, test execution).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-08 18:00:01 -06:00
DottaandClaude Opus 5.5 6451d2bfbf fix(native): verify a staged attachment restart on the claimed sandbox lease (#20136)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A follow-up codex run on a per-turn Daytona sandbox gets a fresh
sandbox, with harness state restored from the previous turn's
checkpoint, and attaches the previous runner session to the new run
through a staged attachment
> - A graceful restart during that start suspends the run. The next
controller reattaches to the surviving remote runner, after proving it
is on the sandbox lease the restart claim names
> - The staged-attachment path required the lease to have been acquired
as `resumed`. A per-turn follow-up's lease is `created`, so every such
restart was refused with
`native_runner_staged_attachment_recovery_unproven`
> - The run then needed a Retry
> - This pull request binds the staged restart to the claimed lease the
same way the ordinary remote reattach does: same provider lease, same
remote directory, and not a replacement sandbox
> - The benefit is that a per-turn follow-up interrupted by a restart
continues on its own

## Linked Issues or Issue Description

Refs #20103

**What happened?**
Daytona per-turn restart-chaos wave w-20261108T225520-s9501 (master
15b987d9b8, image cbbe8224). Two codex C1 follow-up runs, created during
a K2 graceful drain at 23:11:45, were suspended mid-start:
- `4d1d3563` (t07);
- `71b43ea1` (t08).

Two to three seconds after the controller came back, both failed with
`native_runner_staged_attachment_recovery_unproven`, rested in
`native_continuation_requires_reconciliation`, and needed a Retry. The
stack shows the first guard in `verifyStagedAttachmentRestart`. Both
runs' environment leases were acquired with
`sandboxLeaseAcquisition.outcome: "created"`, because per-turn mode
creates a fresh sandbox for each turn. The guard accepted only
`"resumed"`.

**Expected behavior**
When the restart claim's provider lease and remote directory match the
run's own lease, the staged attachment's restart is verified as before,
and the run continues without a Retry. The rest of the staged proof is
unchanged. A replacement sandbox, or a different provider lease or
directory, is still refused.

**Steps to reproduce**
1. Run a codex follow-up on a per-turn Daytona environment, so the lease
is `created` and the start stages an attachment.
2. Gracefully restart the control plane during the start.
3. Before this change, the restarted run fails with
`native_runner_staged_attachment_recovery_unproven`.

**Paperclip version or commit**
15b987d9b8 (wave). Branch rebased on current master.

## What Changed

- `verifyStagedAttachmentRestart` (`native-session-executor.ts`) no
longer requires `sandboxLeaseAcquisition.outcome === "resumed"`. It
requires the same lease binding as `verifyRemoteRunnerReattachment`:
- the target's provider lease equals the claim's
`remote.providerLeaseId`;
  - the target's remote directory equals the claim's `remoteCwd`;
  - the lease is not a `replacement` sandbox.
- A new test case in `native-session-executor.test.ts` covers a created
sandbox (admitted), a replacement sandbox, another provider lease, and
another remote directory (all refused).

## Verification

- Red/green: on master, the created-sandbox case fails with
`native_runner_staged_attachment_recovery_unproven`. With the change it
reaches the staged recheck. The three refusal cases are refused on both.
- `vitest run` of `native-session-executor.test.ts` and
`native-restart-recovery-isolation.test.ts`: 2 files, 1305 tests passed.
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck` (`server`): passed.

## Risks

- Low risk. The check now matches the ordinary remote reattach, which
already admits created leases. Everything after it is unchanged: the
encrypted staged header, the source run and result, the template digest,
and the remote runner identity are all still proven before any RPC.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), via Claude Code with tool use
(shell, file edits, test execution).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-08 17:59:56 -06:00
DottaandClaude Opus 5.5 77168d3367 fix(recovery): settle a dead controller's result lease for a run a pause cancelled (#20113)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A budget hard stop pauses the agent, which cancels its running work
and waits until every execution has provably stopped
> - The shared ownership reconciler (#19933) settles an accepted
result's executor lease when its controller is proven dead, so
finalization does not wait out the 20-minute lease
> - In the restart-chaos H1 wave, the pause cancelled a run 0.36 s after
its result was accepted, and a hard kill then took the controller
> - The settle only acted on runs that were still `running`, so the dead
lease held finalization, the agent stayed in `pausing`, and every later
task for it was stranded
> - This pull request settles that lease for a cancelled run too, and
records the budget pause with its reason
> - The benefit is that a pause crossed by a restart completes at once
and resume continues normally

## Linked Issues or Issue Description

Refs #19933, #20101

**What happened?**
Restart-chaos wave w-20261108T210118-s9802 (scenario H1). An agent-scope
budget hard stop paused agent "Chaos claude". The pause cancelled run
`dfc22298` at 21:02:27.818, 0.36 s after its result was accepted
(finalization phase `workspace_finalizing`, executor lease until
21:21:55, controller PID 78157). A K4 SIGKILL followed. After the
board's `raise_budget_and_resume`, the agent stayed `status=paused`,
`lifecycle_state=pausing`, `lifecycle_holds=[]`, with its lifecycle
operation at `attempts: 90`, `hostComplete: false` and no error. The
pause host step (`stopInvocationsForAgents` →
`agentExecutionsHaveStopped`) returns `pending` while any coordinator
holds an owner lease with an accepted result.
`settleNativeAcceptedResultLease` required `heartbeat_runs.status =
'running'`, so it returned `lease_no_longer_held` for the cancelled run.
The pause also wrote no activity entry.

**Expected behavior**
A proven-dead controller's accepted-result lease is settled whatever
stopped the run, so finalization finishes and the pause completes. The
budget pause is logged with its reason.

**Steps to reproduce**
Pause an agent right after its run's result is accepted, then SIGKILL
the server. After restart, the agent stays in `pausing` until the lease
expires (up to 20 minutes).

## What Changed

- `native-accepted-result-lease-settlement.ts`: settle the lease for a
`running` or `cancelled` run. All other guards are unchanged: exact
owner compare-and-set, owner proven gone by `proveOwnerGone`, remote
copyback excluded, another host never proof.
- `agent-lifecycle.ts` `applyAgentBudgetHoldInTransaction`: when the
budget hold is added or removed, records `agent.paused` /
`agent.resumed` with `reason: "budget"`, the lifecycle state and the
holds, in the transaction that applies the hold. Applying the same hold
again records nothing.
- `budgets-service.test.ts`: its activity-log mock now also stubs
`persistActivity`.

Not changed, by design: resume still waits for an incomplete pause to
finish before resuming. The pause's host step proves the agent's
executions stopped before new work starts. In H1 it was blocked only by
the dead lease, which is now settled at restart.

## Verification

- `heartbeat-native-restart-suspension.test.ts`: new "finalizes an
accepted result whose run a pause cancelled before a hard kill took its
controller". It fails on master (lease still 20 minutes out) and passes
with the fix (lease owner cleared, finalization past
`workspace_finalizing`). Whole file: 41 passed.
- New `agent-budget-hold-activity.test.ts`: the pause and release
entries, with the reason, written once each.
- `budgets-service.test.ts` (19), `budgets-history.test.ts`,
`company-portability-routes.test.ts`,
`agent-lifecycle/__tests__/lifecycle.test.ts`: passed.
- `server` typecheck (`scripts/typecheck-layers.mjs`, low-memory): no
errors.
- Not run: the H1 chaos rerun (Phase 3 schedules it after merge).

## Risks

- A cancelled run's accepted result is now finalized promptly after a
hard kill instead of after the lease term. The finalizer already handles
a run cancelled during finalization; the settle only shortens the wait.
- New activity entries on budget pause and release. Run-log and activity
only; no Telemetry.

> For core feature work, check [`ROADMAP.md`](ROADMAP.md) first and
discuss it in `#dev` before opening the PR. Feature PRs that overlap
with planned core work may need to be redirected — check the roadmap
first. See `CONTRIBUTING.md`.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), Anthropic, via Claude Code with
tool use (shell, file edits, test execution). Extended reasoning
enabled.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-08 17:06:13 -06:00
DottaandClaude Opus 5.5 776f4cb602 fix(native): restart an interrupted remote bootstrap on a resumed reusable lease (t06) (#20103)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A native run on a remote sandbox must survive a control-plane
restart; a bootstrap interrupted before its first turn is restarted on
the same run
> - With a reusable (warm) sandbox lease, the restart always resumes the
same sandbox. The interrupted runner's state is still on disk there:
never suspended, and with no provider turn
> - The resumed check accepted only a suspended checkpoint or no state
at all, so it failed closed with `resumed_not_suspended`, and the task
needed a Retry (restart chaos t06)
> - The pre-phase had already proven no turn was sent and had stopped
the stale runner, but that proof never reached the resumed check
> - This pull request carries that proof forward, for this run only, and
starts the bootstrap again on the resumed sandbox
> - The benefit is that a warm task interrupted during startup continues
on its own after the restart

## Linked Issues or Issue Description

**What happened?**
In restart-chaos wave w-20261108T192459-s9501 (Daytona warm, claude C1),
run 9bf86b59's runner reached transport-ready at 19:37:42 UTC. The
control plane was then down (another task's K4, then this task's K1).
Restart recovery classified the run `bootstrap_incomplete` and restarted
it on the same run at 19:41:51. The reusable lease resumed the same
sandbox. `inspectRemoteHarnessState` found this run's runner state with
`lifecycle` other than `suspended`, and the run failed at 19:41:59 with
`runner_ingress_unavailable: runnerd process failed:
runner_harness_state_mismatch: resumed_not_suspended`. The task needed a
manual Retry. Per-turn and non-reusable leases do not resume, so they
take another branch and were unaffected.

**Expected behavior**
A same-run restart of a bootstrap that provably sent no turn starts the
bootstrap again on the resumed sandbox, with no Retry. It must never
take over a live provider session or another run's warm session.

**Steps to reproduce**
1. Run a task on a reusable (warm) Daytona lease.
2. Kill the control plane after the runner connected and before the
first turn, so the run is `bootstrap_incomplete`.
3. Before this change, the restart fails with `resumed_not_suspended` on
the resumed lease.

**Paperclip version or commit**
master at d007afbf86 (the wave ran on c5a172a183).

## What Changed

- `native-session-executor.ts`:
- **Pre-phase:** the `bootstrap_incomplete` remote-sandbox pre-phase
clears any earlier proof for the run, then records a per-run proof
(`recordRemoteBootstrapRestartProof`). It records one only for a
confirmed stop:
    - `absent_confirmed`: verification reported `process_not_running`;
    - `stopped` or `killed`: the exit was confirmed after the signal.

An uncertain probe or a runner that outlives SIGKILL records nothing
(`stopStaleRemoteRunnerBeforeBootstrap` now distinguishes these
outcomes).
- **Inspection:** `inspectRemoteHarnessState` also returns the `runId`
of a not-suspended runner state (`notSuspendedRunId`). Its other fields
are unchanged.
- **Resumed check:** on a `bootstrap_incomplete` restart, a
not-suspended state with no backup is restarted only when all of these
hold:
    - the on-disk state is this run's own;
    - the proof is present;
- the interrupted session folder moved aside by rename, kept as evidence
and never deleted. The runtime root, the sessions parent and the folder
must each be a real, non-symlink directory.

    The proof is consumed only after the move succeeds.

It then claims a fresh session through the existing
`claimUntouchedRemoteSession`, which still requires an unconnected
controller with matching identity.
- Every other case keeps `runner_harness_state_mismatch:
resumed_not_suspended`.

## Verification

- Red/green: a new resumed-lease scenario, `interrupted_bootstrap`, in
"bootstraps only an untouched provider session in a $outcome workspace
lease". It fails without the change and passes with it. It checks that
the old session folder is kept beside the new claim and that the claim
runs exactly once.
- Counter-cases that still fail closed, with nothing moved aside:
`interrupted_bootstrap_other_run` (a previous warm run's state on disk),
`interrupted_bootstrap_unproven` (no pre-phase proof) and
`interrupted_bootstrap_symlink_parent` (a symlinked sessions parent).
The existing warm "no-proof" case keeps `resumed_not_suspended`.
- Stale-runner stop: "does not confirm absence when the process probe is
uncertain", "reports a runner that outlives SIGKILL as not stopped", and
"records a bootstrap restart proof only for a confirmed stop" (one case
per outcome).
- `pnpm exec vitest run
src/services/native-runtime/native-session-executor.test.ts
src/services/native-runtime/native-runner-restart-recovery.integration.test.ts`
(server): 2 files, 1440 tests passed (14 skipped).
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck` (server): passed.

## Risks

- **Taking over a live session:** this is the risk to watch. It is
bounded by every gate together: the `bootstrap_incomplete` claim, the
pre-phase proof from the restored controller record (no turn sent) with
the stale runner stopped, this run's own on-disk state, no backup, the
folder move, and the existing unconnected-controller claim. A failure at
any step keeps the current fail-closed error.
- **Upgrade safety:** the old runner's session folder is kept by rename,
never deleted. The change applies only to state a restart left behind,
so old-saved state takes the same gated path.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), via Claude Code with tool use
(shell, file edits, test execution, a read-only research subagent).

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-08 15:01:30 -06:00
DottaandClaude Opus 5.5 d007afbf86 fix(native): let a follow-up wait out the previous turn's warm release instead of failing busy (#20068)
## Thinking Path

- With a warm lifecycle, one session serves consecutive turns on a task.
A follow-up comment wakes the next run, which claims the warm session's
instruction copy and reuses the session.
- #20048 makes warm the default on remote sandboxes. Its merge condition
includes "no restart or follow-up ever leaves a task needing Retry".
- In the #20048 Daytona chaos wave, task t12's follow-up run was created
43 ms after the previous run settled. The previous run was still
releasing its warm session, so `claimWarmNativeInstructionCopy` saw it
busy and failed the run with `native_session_supervisor_busy`. The task
then needed a Retry.
- The release takes seconds and always finishes, so a follow-up should
wait for it rather than fail. A session busy because another run is
preparing or executing a turn is a genuine conflict and must still fail
at once, as existing tests require.

## Linked Issues or Issue Description

Refs #20048

**What happened?**
Wave w-20261108T142906-s9501, t12 (claude, warm): run 5b839da4 succeeded
at 14:46:36.224. The follow-up run f2bf2f05 was created at 36.267 and
failed immediately with `adapter_failed` /
`native_session_supervisor_busy`, from `claimWarmNativeInstructionCopy`
called by `instruction-working-copy.prepare`. Its automatic retry also
failed, and only a user Retry completed the task.

**Steps to reproduce**
1. Run a warm native session turn to completion.
2. While that run is still releasing its warm session (post-turn
instruction check, release, hand-back), admit the next run on the same
session.
3. The next run's instruction-copy claim throws
`native_session_supervisor_busy`.

**Expected behavior**
The follow-up waits for the previous run's release (bounded) and reuses
the session. A session held by a run that is still preparing or
executing fails admission at once, as before.

## What Changed

- `server/src/services/native-runtime/native-session-executor.ts`:
- When the provider turn ends, the executor records the session scope as
settling (`settlingNativeSessionScopes`). The outer `finally` clears the
mark once the run has handed every scope back.
- `claimWarmNativeInstructionCopy` waits, polling every 25 ms for at
most 30 s (`warmSessionReleaseWait`), while the warm entry is busy and
its scope is settling. It then re-reads the entry and runs the existing
checks. If the entry is still busy at the deadline, or busy for any
other reason, it throws `native_session_supervisor_busy` as before.
- No wait happens on the normal path (entry idle), so turn admission
adds no latency.
- `server/src/services/native-runtime/native-session-executor.test.ts`:
two cases.
- A follow-up claimed while the previous turn's post-turn check is held:
it waits, then succeeds once the release finishes. It fails on master
with the wave's error.
  - The release outlasts the bound: it fails busy.

**Previous-release state:** the change touches only in-memory admission
state, so no saved run or session state changes.

## Verification

- `cd server && npx vitest run
src/services/native-runtime/native-session-executor.test.ts
src/services/heartbeat/instruction-working-copy.test.ts`: 1301/1301
pass.
- With the wait removed (behaviour on master), the "release finishes"
case fails with `native_session_supervisor_busy`.
- The existing concurrency tests ("fences owned instruction preparation:
concurrent", and the settled-release ownership tests) still fail
admission at once.
- Not yet covered: the Daytona warm wave rerun for #20048.

## Risks

- **A wait that never ends.** The wait is bounded at 30 s and happens
only while the owner is past its turn, which always reaches the outer
`finally`. Every caller of the inner executor runs inside that `try`,
and attachment staging keeps the same session scope.
- **Hiding a real conflict.** Only a settling owner is waited for. A
preparing or executing owner fails at once, as the existing tests
assert.
- **Scope.** I tried a similar wait at execution admission, but it
conflicted with deliberate fences that reject a run during a settled
release (the existing "releases settled codex only under its current
owner" tests). It is not part of this PR.

## Model Used

Claude Opus 5.5 (`claude-opus-5-5`, Anthropic), 1M context window, tool
use and code execution, via Claude Code.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-08 13:57:32 -06:00
DottaandClaude Opus 5.5 b32ef9f111 perf(budgets): judge time to first visible agent activity; keep time to first text as a reported metric (#20077)
## Thinking Path

- The native speed budgets (plan invariant 8) judge how fast an agent
responds. They judged `task.time_to_first_token`: time to the first
deliverable **text**.
- In the clean local restart storm (w-20261108T153612-s9401), Claude
breached its TTFT budget (cold p50/p95 17.4/34.7 s against 16.5/30). The
per-run spans showed this was not a control-plane wait: in all 49 cold
runs (and 76% of warm), Claude started a tool call before writing any
text. Its first visible activity came at 7.4 s p50 from run creation;
first text came at 19.6 s. Codex never calls a tool first.
- So first text charges model tool work as latency for tool-first
adapters. What the user experiences as "the agent responded" is the
first visible activity: a text delta, a tool-call start, or a thinking
indicator.
- The coordinator decided: budgets judge time to first visible agent
activity from run creation, with the budget numbers unchanged; first
text stays a reported metric with no budget for tool-first adapters.

## Linked Issues or Issue Description

**What happened?**
Local storm s9401: the Claude TTFT budget breached on every aggregate,
while the control-plane steps (queue 0.05 s, prepare 0.3 s, runner
startup ~4 s, first provider event 1.3–1.8 s) were well within budget.
The rest of the first-text wait was Claude streaming tool input (about
5.5 s per call) and running tools before it wrote text.

**Steps to reproduce**
1. Run a Claude task whose first action is a tool call (most real
tasks).
2. Read the run log: `provider.time_to_first_agent_event` ends at the
tool call; `task.time_to_first_token` ends many seconds later at the
first text.
3. The speed budget judges the later one and reports a breach.

**Expected behavior**
The budget judges the first visible agent activity from run creation
(`task.time_to_first_agent_activity`). Time to first text is still
recorded and reported.

## What Changed

- `server/src/services/native-runtime/native-session-executor.ts`: when
the first meaningful agent event commits (the existing
`firstMeaningfulAgentEventKind`: text delta, tool-call start, or
reasoning), record `task.time_to_first_agent_activity`. It uses the same
detached anchor resolution as TTFT (accepted comment, answered question,
durable wake request, or run creation), so it adds nothing to the turn
path.
- `server/src/services/native-runtime/native-speed-budgets.ts`: the
metric is now named `time_to_first_activity` (was `ttft`), with
identical budget numbers. The type comment documents the definition and
why first text is unbudgeted.
- `server/src/services/native-runtime/native-run-trace.ts`: the budget
check judges `task.time_to_first_agent_activity` from run creation,
keeping the existing input-wait handling. `task.time_to_first_token` is
no longer budgeted.
- `tests/restart-chaos/ttft-baseline-stats.ts` and `ttft-baseline.ts`:
report first activity from run creation (the budgeted value) next to
TTFT.
- Docs: `doc/observability.md` (new span) and
`doc/plans/2026-11-07-ttft-baseline.md` (metric table).
- Tests:
- A tool-first turn records first activity at the tool call (5 s) while
TTFT records first text (16 s).
- A tool-first trace with slow first text but fast first activity is
within budget.
  - The existing budget tests now judge the activity span.

Observability path (AGENTS.md section 5.7): the new run-log span uses
only the existing `eventKind` and `anchor` attributes. Its name survives
run-log redaction intact; checked with `redactEventPayload`. The
operator OTLP gate is unchanged. It is not Telemetry.

## Verification

- `cd server && npx vitest run
src/services/native-runtime/native-speed-budgets.test.ts
src/services/native-runtime/native-run-trace.test.ts`: 44/44 pass.
- `cd server && npx vitest run
src/services/native-runtime/native-session-executor.test.ts -t "first
visible activity|first assistant text once|first-token timing"`: 7/7
pass.
- `npx vitest run --root tests/restart-chaos`: 159/159 pass; `tsc` on
`tests/restart-chaos` is clean.

## Risks

- **A metric rename.** Consumers of `run.performance.budget_exceeded`
see `metric: "time_to_first_activity"` instead of `"ttft"`. In-repo
there are none besides the tests; Phase 3's chaos speed grade switches
to the new span.
- **A looser budget for slow first text.** Intentional: first text is
reported, not judged. A regression in control-plane latency still shows
up in first activity.

## Model Used

Claude Opus 5.5 (`claude-opus-5-5`, Anthropic), 1M context window, tool
use and code execution, via Claude Code.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-08 12:32:42 -06:00
DottaandClaude Opus 5.5 a9cf4ee731 fix(outbox): deliver a user comment whose wake was lost on a task its agent then closed (#20066)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A user's comment on a task with a live run must reach the agent: it
is steered into the run or delivered in a follow-up run. Per-comment
exactly-once delivery is plan invariant 4
> - A comment commits before its wake is written. A control-plane
restart in between loses the wake, and the reconciler's lost-wake rule
(chaos s9401/t69) saves the missing outbox entry
> - That rule only looked at `todo` and `in_progress` tasks. In the
restart chaos Daytona wave s9501, task t06 got a comment 10 ms before a
K1 kill. The live run then finished, its agent closed the task, and the
comment was never read
> - This pull request extends the rule to a task its agent closed, and
reopens that task for the user's message, as the release drain already
does
> - The benefit is that a message sent while the agent works is never
silently dropped by a restart

## Linked Issues or Issue Description

Refs #19831 (plan, section E: work-intent outbox, invariant 4), and
#19992 (the s9401/t69 and t72 rules this extends). Found by the restart
chaos campaign, wave w-20261108T142906-s9501, task t06:

- The comment was saved at 14:40:17.048.
- The K1 kill came at .058.
- No wake request ever carried the comment, and no run event shows it
steered in.
- The run that started before the comment finished at 14:44:22 and
closed the task.

## What Changed

- `recovery/ownership-invariant-report.ts`
(`checkUserCommentsWithoutWake`): also reports a comment on a `done`
task its agent closed (`taskClosedByAgentSql`), when no wake carries it,
no run started after it, and no run of the task logged it as a steered
`userMessage` item.
- `work-intent-outbox.ts` (`saveUndeliveredUserComments`): a new
`reopenAgentClosedDone` option. In the same transaction that locks the
issue, re-checks the agent close and saves the receipt, it reopens the
task to `todo` through the issues service. It also logs `issue.updated`
(reopened from done, source `undelivered_comment_backstop`).
- `native-finalization-reconciler.ts` (`applyOwnershipReportBackstops`):
the lost-wake backstop allows `done` and passes `reopenAgentClosedDone`.
The receipt keeps its `wake_lost` / `reconciler_backstop` wait, so the
existing release path delivers it once.

## Verification

- `heartbeat-held-comment-wake.test.ts`, new test "delivers once a
comment whose wake a restart lost mid-run on a task the run then
closed". It fails on `master` and passes here. The violation is found,
the backstop saves and reopens, the comment is delivered exactly once,
and a second pass and backstop deliver nothing more. All 25 tests in the
file pass.
- `ownership-reconciliation-report.test.ts`, new test "finds a user
comment that a restart left without a wake on a task its agent then
closed". It fails on `master` and passes here: only the lost comment is
reported, not one steered into the run and not one on a task a person
closed. All 26 pass.
- The server package typecheck passes.

## Risks

- **Reopening a done task.** This only happens when the latest recorded
close was not made by a person, the comment is a direct human comment,
and no run received it or had it steered in. That's the same rule the
t72 stale-continuation path and the release drain already apply.
- **The steer check** joins the task's runs to their `item.started`
events by comment ID. It runs only for candidate comments within the
lookback window.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), Anthropic, with tool use and code
execution in Claude Code.

## Checklist

- [x] I have included a thinking path that traces from project context
to this change
- [x] I have specified the model used (with version and capability
details)
- [x] I have checked ROADMAP.md and confirmed this PR does not duplicate
planned core work
- [x] I have searched GitHub for duplicate or related PRs and linked
them above
- [x] I have either (a) linked existing issues with `Fixes: #` / `Closes
#` / `Refs #` OR (b) described the issue in-PR following the relevant
issue template
- [x] I have not referenced internal/instance-local Paperclip issues or
links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip`
URLs)
- [x] My branch name describes the change (e.g. `docs/...`, `fix/...`)
and contains no internal Paperclip ticket id or instance-derived details
- [x] I have run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [ ] All Paperclip CI gates are green
- [ ] Greptile is 5/5 with no open P2s, recommendations, or follow-ups
- [x] I will address all Greptile and reviewer comments before
requesting merge

🤖 Generated with [Claude Code](https://claude.com/claude-code)

---------

Co-authored-by: Claude Opus 5.5 <noreply@anthropic.com>
2026-11-08 10:08:00 -06:00