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DottaandClaude Opus 5.5 c49ab6b9ee feat(issues): wake the parent once when a child or blocker stalls on the board (#20098)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A parent task delegates to children and waits on blockers. Its agent
learns of progress only through wakes
> - Today only completion (`issue_children_completed`) and resolution
(`issue_blockers_resolved`) wake a waiting issue
> - In restart chaos `w-20261108T181313-s9701` t05, a blocker stopped on
a recovery action that needs the board, and its parent sat silently
blocked for 50+ minutes
> - This pull request wakes the waiting agent once per such stall, tells
it what it can do, and shows the stall on the parent's page with the
child's Retry
> - The benefit is that a stuck child or blocker no longer silently
strands its parent

## Linked Issues or Issue Description

Refs #19831 (durable ownership plan; restart chaos campaign). Restart
chaos wave `w-20261108T181313-s9701`, task t05 (M1, claude).

**Problem**

From the kept database:
- CHA-8 `blocks` CHA-5.
- CHA-8's board-owned recovery action (`native_session_retry_exhausted`)
was created at 18:44:02.909 and resolved with outcome `blocked` at
18:44:08, when CHA-8 moved to `blocked` for the board.
- CHA-5's only wake in the whole wave was its `issue_assigned` at
18:20:48. Its agent never heard about CHA-8.

**Expected behavior**
- When a child or blocker stalls on the board, the waiting agent is
woken once. It can then re-delegate, escalate, or block with a reason.
- The board sees the stall on the waiting task, with the child's Retry.

## What Changed

- **Shared:**
- `ISSUE_BLOCKER_STALLED_WAKE_REASON` (`issue_blocker_stalled`),
`ISSUE_BLOCKER_STALL_RELATIONS`, and the types
`IssueBlockerStallRelation` and `IssueBlockerStalledWakeContext`;
  - `Issue.stalledDependencies`.
- **Server, `services/recovery/blocker-stall-wakeups.ts`:**
- A stall is an issue that is not done or cancelled, whose latest
recovery action needs the board. That means either open
(`active`/`escalated`) and board-owned or escalated, or board-owned and
resolved as `blocked` while the issue is still `blocked`. The second
case is what t05 needed: recovery resolves its action that way when it
hands the issue to the board.
- Waiters are the parent, and every issue the stalled one `blocks`, when
they are open, visible and agent-assigned.
- Each waiter gets one wake per stall. The idempotency key
`issue_blocker_stalled:{waiter}:{stalled}:{recoveryActionId}` is checked
through the indexed `(company_id, payload->>'issueId')` path. A later
stall has a new action id, so it wakes again.
  - Each wake writes activity `issue.blocker_stalled_wake`.
- The pass runs from the recovery-action sweep
(`reconcileActiveRecoveryActions`) and from the per-issue blocked sweep
(`reconcileResolvedDependencyWakeBackstop`, which visits each blocked
issue). No new worker.
- A waiter's agent that cannot read the stalled issue (`issue:read`,
which honors private visibility) is woken without its title, identifier
or recovery details; the activity entry withholds them too.
- **Database:** migration `0450` adds the partial unique index
`agent_wakeup_requests_issue_blocker_stalled_uq` on `(company_id,
idempotency_key)` for `issue_blocker_stalled:` keys in delivered or
pending statuses, so two concurrent sweeps cannot both deliver a stall.
It is built `CONCURRENTLY IF NOT EXISTS` outside a transaction (listed
in `MIGRATIONS_WITH_TOP_LEVEL_STATEMENTS`).
- **Queue:** `allowsDependencyBlockedWake` (in
`run-dispatch/domain/wake-context.ts`) lets a stall wake run while the
waiter's blockers are unresolved, at both dependency gates. Without it
the wake was parked until the stalled blocker resolved, which is never.
Pause holds are unchanged.
- **Agent guidance:** the wake payload carries `blockerStall`, and
`renderPaperclipWakePrompt` adds a "Stalled dependency" section. It
names the task and its recovery action and the board's next action, then
the three choices: re-delegate, escalate with a comment, or block with a
reason naming the stalled task.
- **Other reason lists:** `issue_blocker_stalled` joins the
responsible-user wake reasons, the conversation execution-wake reasons
(it never drives a chat turn) and the wake diagnostic's known reasons.
- **Board surface:**
- `GET /issues/:id` returns `stalledDependencies`, readable issues only
(`readableIssueEdgeIds`).
- `StalledDependencyNotice` shows on the issue's chat notices, next to
`IssueBlockedNotice`: each stalled child or blocker, its board next
action, a link, and the child's own Retry (`useTaskRetry`), offered only
when the child's interruption allows it.

## Verification

Red/green:
- `server/src/__tests__/issue-blocker-stall-wakeups.test.ts` (14 tests).
  - On master: no `issue_blocker_stalled` wake is raised.
- With this PR: the parent is woken once per stall, and re-woken after a
new stall. A blocker's dependent is woken.
- The t05 shape (an action resolved as `blocked`) wakes once, and
nothing more after a Retry.
- No wake for an agent-owned action, a done, unassigned or hidden
waiter, or an action resolved another way.
  - `listStalledDependencies` lists children and blockers.
- `heartbeat-dependency-scheduling.test.ts` "admits an
issue_blocker_stalled wake while a blocker is unresolved". On master the
wake was parked (`null`); once admitted, the run-start gate cancelled
it. With this PR it runs with `dependencyBlockedInteraction`. The file:
14 passed.
- `packages/adapter-utils` `server-utils.test.ts`: the new prompt test
failed on master (no `blockerStall`). The file: 141 passed.
- `ui/src/components/StalledDependencyNotice.test.tsx`: 3 passed.
`IssueChatThread.test.tsx`: 109 passed.

Regression and static checks:
- Nearby server suites (recovery durable wait, dependency wake routes,
recovery actions, run-preparation): 149 passed.
- `tsc --noEmit` passes for `packages/shared`, `server` and `ui/src`.
- `pnpm check:token-gates` is clean.

Review round 1 (Greptile, Superagent), each with a regression:
- A backlog waiter is never woken. The waiter's status and assignee are
guarded at enqueue.
- One stall per run: no coalescing, so a merged run cannot keep only the
last stall's context.
- Only a delivered or pending wake ends a stall. A refused one
(wake-on-demand off) is retried after 10 minutes, and an agent that
takes no wakes is skipped without writing a row.
- Company-wide passes resume after the last stall a capped pass reached.
The per-issue sweep also checks the issue's own children and blockers,
which covers an unassigned stalled blocker.
- The dependency gates no longer trust the reason string.
`verifyBlockerStallWake` requires a system request, the stalled issue's
current stall action, and a real child or blocker edge. An
agent-requested wake with the same context is parked (tested).
- The notice shows a refused Retry's reason, and a lost response as
"Taking longer than usual…", with Retry still available (tested).

Review round 2 (Greptile), each with a regression:
- Race: two passes claiming one stall leave one delivered row (unique
index; the loser's insert is skipped).
- The company recovery sweep selects companies whose only stall is a
resolved-`blocked` board action, so an unassigned stalled blocker with a
todo waiter is reached.
- Private stalled issue: the waiter's wake and activity carry no title,
identifier or recovery details.
- `GET /issues/:id` always returns `stalledDependencies`, so a cleared
stall replaces the cached list.
- The notice shows a failed child read with a Reload button (tested).
- `pnpm --filter @paperclipai/db check:migrations` passes.

Review round 3 (Greptile), each with a regression:
- A stall wake that fails to enqueue is retried: the recovery-action
pass reports `blockerStallWakeFailures` and the dependency pass counts
it in `enqueueFailed`, so the worker throws and retries at its backoff
(`issue-recovery-work-lifecycle.test.ts`).
- The notice drops a stall once the child's refreshed status has moved
on (`StalledDependencyNotice.test.tsx`, 7 tests).

## Risks

- A deploy wakes the waiters of every issue that is stalled today, once
each. That is intended (they are stranded now), and it's bounded at 200
stalls per pass.
- A stall wake may run while blockers are unresolved, like a comment
wake. It is bounded to one per stall, and pause holds still apply.
- The agent skill (`skills/paperclip`, CODEOWNER-owned) does not yet
list the new reason. The wake prompt carries the guidance.
- One additive index, built concurrently; no persisted run state change.
Existing rows cannot violate it before deploy, since no
`issue_blocker_stalled:` keys exist yet.

## 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>
2026-11-08 18:26:07 -06:00
DottaandClaude Opus 5.5 95d476c57b docs(plans): record the measured seed experiment for per-turn uploads (#20139)
## Thinking Path

- #20100 proposed sending only the changed files on per-turn follow-ups,
with the repository seed held inside Daytona in a snapshot or a volume.
It asked for one measured experiment before building.
- Snapshot and volume operations were blocked by our Daytona key's
permissions. A restricted key with those permissions now exists, so the
experiment has run.
- This PR records the numbers and the decision in the design doc.

## Linked Issues or Issue Description

Refs #20100

**What happened?**
The #20100 design's seed-location choice was unmeasured: snapshot build
time and volume read speed were both open questions.

**Steps to reproduce**
1. Run the SDK timing of direct upload, volume extract, and snapshot
build and create on the paperclip seed (58.7 MB gzip) in Daytona `us`, 2
vCPU.

**Expected behavior**
The design doc states the measured winner, the per-turn saving, the
one-time cost, and the work needed to build it.

## What Changed

- `doc/plans/2026-11-08-incremental-per-turn-workspace-upload.md`:
  - The status now reads: measured; snapshot chosen; not built.
  - New "Experiment results" table:
    - direct upload: 6.4 s per turn;
    - volume: 6.8 s per turn, which rules it out;
- snapshot: about 2–3.5 s per turn, after a 177 s build per seed
generation.
- Findings: fork is unsupported, compression is exhausted, and the
snapshot builder runs as `daytona` and does not extract archives.
- New "Work to build the snapshot seed" list: lifecycle, sandbox
creation, verification and fallback, expiry and cleanup, and rebuild
policy.

## Verification

Docs only. Every Daytona resource the experiment created was deleted,
and an account-wide listing confirmed none remained.

## Risks

None at runtime.

## 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 18:21:08 -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 4420a5adcf fix(issues): a Retry held by a blocked subtask names it instead of failing silently (#20109)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - The board's Retry is the one action a person takes when a task
stops; it must either start work or say why it can't yet
> - Restart chaos t05 left a parent task blocked on a blocked subtask.
The board clicked Retry twice; each was accepted and nothing happened
> - The Retry was saved and the queue deferred it behind the unresolved
blocker, which is correct. But the task still looked failed with Retry
offered, so the wait was invisible
> - This pull request presents a saved Retry that waits only on
unfinished blockers as waiting, names the blocked subtask and links it
> - The benefit is that the board sees what to act on (the subtask's own
Retry) instead of clicking a Retry that cannot run

## Linked Issues or Issue Description

Refs #19831 (durable ownership plan). Restart chaos wave
`w-20261108T200620-s9701`, task t05 (claude, M1, K4).

**Problem:** parent CHA-5 was blocked by subtask CHA-10, which was
itself blocked on a board recovery action. The board pressed Retry on
CHA-5 at 20:27:46 and 20:40:46. Each `POST /issues/:id/retry` returned
202, and the saved Retry stayed `deferred_issue_execution` behind
CHA-10, so no run started. The task's interruption presentation kept
saying `failed` with `canRetry: true` and gave no reason.

## What Changed

- `server/src/services/task-interruption-presentation.ts`:
- For tasks with a saved (deferred, user-requested) Retry, the loader
reads the queue's own dependency readiness (`listDependencyReadiness`).
That counts cancelled blockers and done blockers whose workspace has not
finalized, like the queue does.
- When the saved Retry for the latest run is held only by unfinished
blockers (no execution wait, no preparation), the task is presented as
`working` with `canRetry: false` and `retryWait: { reason:
"dependency_blocked", message }`.
  - The message has three forms:
    - a blocked blocker: "Retry or unblock it";
- a cancelled blocker: "Remove or replace that dependency to continue",
because the queue keeps it unresolved;
    - otherwise: waiting for the blockers to finish.
- The presentation carries no blocker names or ids. Issue reads return
it to restricted agents too.
- The Retry response (`POST /issues/:id/retry`) already returns this
presentation, so the API says the Retry is waiting on dependencies as
soon as it is saved. The blockers themselves are in the issue's
`blockedBy`, which issue reads already filter per viewer.
- `ui/src/components/ExecutionBlockerNotice.tsx` takes `blockers` (the
issue's `blockedBy`, from `IssueDetail`). For a `dependency_blocked`
wait it lists each readable unfinished blocker with a link and what it
needs: "Blocked: open it to Retry" or "Cancelled: remove or replace it".
Tokens only; `pnpm check:token-gates` is clean.
- No shared type change, and no code comments added.

## Verification

Red/green:
- `server/src/__tests__/task-interruption-query.test.ts` "explains a
saved Retry held by unfinished blockers instead of offering Retry again
(restart chaos t05)". It sets up a parent with a failed run, a saved
Retry deferred, and a blocked subtask that blocks it.
  - On master: `{ state: "failed", canRetry: true }`, no reason.
- With this PR: `working`, `canRetry: false`, `dependency_blocked`. The
presentation has no blocker title or identifier.
- A cancelled blocker gets the remove-or-replace message. Once the
blocker is done, the dependency wait is gone.
- `ui/src/components/ExecutionBlockerNotice.test.tsx`: the notice links
the blocked and the cancelled blockers with their actions, skips the
done one, and offers no second Retry.

Regression: `task-interruption-query` (25 tests) and
`ExecutionBlockerNotice` (16 tests) pass, as do the presentation unit
tests, workspace-recovery admission, gates and copyback tests, and
`heartbeat-dependency-scheduling`. `tsc --noEmit` is clean for `server`
and `ui`.

## Risks

- One more batched read (dependency readiness plus blocker statuses),
only for tasks in the page that have a saved Retry.
- Presentation only. Admission is unchanged: the queue still runs the
saved Retry when the blockers are done.
- A Retry saved before a blocker was added shows the same wait, which is
accurate, because the queue holds it too.

## 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)
- [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 (code
comments; 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>
canary/v2026.1109.0-canary.0
2026-11-08 17:18:55 -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 89265f7312 test(chaos): add R1, a code change in a fresh clone of a real repository (#20111)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - The restart chaos harness proves that real agent tasks survive
control-plane restarts
> - Its coding workloads run in a tiny chaoscli fixture. Real work
happens in large repositories, where workspace setup, copy and restore
cost more and fail differently
> - The campaign asks for real coding tasks in a fresh Paperclip clone,
run under restarts
> - This pull request adds the smallest support for that: a
`--workspace-repo` option and an R1 workload
> - The benefit is restart coverage for code changes in a real
repository, graded by running the agent's own test and a hidden case

## Linked Issues or Issue Description

Refs #20071, #20089

**What is missing?**
The harness can only seed the generated chaoscli fixture as the project
workspace. There is no way to run restart chaos against a code change in
a real repository.

**Expected behavior**
An operator can name a git repository. The harness clones it fresh as
the workspace, and a workload asks for a real code change in it with an
oracle that runs the result.

## What Changed

- `--workspace-repo <git repository>`: `seedChaosLab` clones it
(shallow, from committed HEAD, `--no-hardlinks`) as the project
workspace instead of the chaoscli fixture. Local only.
- R1 workload: the agent adds
`packages/shared/src/chaos/slug-<nonce>.ts` with `chaosSlug` and a
`node:test` file, and runs it. The nonce names keep concurrent tasks
from colliding in one repository.
- The R1 oracle runs the agent's test with `node --test` and a hidden
case against the module through Node's type stripping.
- Collect commands can take an `argv` function of the nonce.
- Config rules: R1 and `--workspace-repo` go together. B1 and B5 (which
need the chaoscli fixture) do not combine with it. R1 is not a default
workload.
- README section "Code change in a real repository".

## Verification

- `npx vitest run` in `tests/restart-chaos`: 195 passed, including new
tests for the config pairing, R1 grading with the nonce argv, and a
shallow clone of a fixture repository.
- `node scripts/typecheck-test-projects.mjs tests/restart-chaos`: clean.
- I checked the oracle commands by hand on Node 26: `node --test` on a
`.ts` test and `node --input-type=module -e 'import … from "./…ts"'`
both work.
- A live R1 wave against a Paperclip clone runs after the current chaos
wave frees the harness slot. Its result will be posted here before
merge.

## Risks

- A shallow clone of a large repository adds seconds to wave seeding.
That is one clone per wave.
- The oracle uses Node's built-in type stripping. A runtime without it
fails `node_test` and `hidden_case`, which shows as an oracle failure,
not a false pass.

## 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 16:55:02 -06:00
DottaandClaude Opus 5.5 42a5d71cb7 test(chaos): separate workspace provisioning from agent boot; grade outage-created runs as restart (#20119)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - The restart chaos harness grades speed against the native speed
budgets, and a breach fails the wave
> - In the real-repository R1 wave, the claude cold boot p95 was 31 s
against 20.5 s, and cold first activity p95 was 37 s against 30 s
> - The performance session traced both. The boot breach was the
repository's own provisioning script on the first worktree creation
(21–24 s), not Paperclip startup. The first-activity breach was a run
created during an outage, behind the next fault
> - This pull request reports provisioning on its own row, keeps it out
of agent boot, and grades runs created during an outage as restart
> - The benefit is that a speed breach points at Paperclip startup, not
at project setup scripts or injected downtime

## Linked Issues or Issue Description

Refs #20106, #20111

**What happened?**
Wave `w-20261108T215822-s9805` (R1 in a Paperclip clone) reported a
claude cold boot p95 of 31.0 s. The slow run spent 22.8 s in
`heartbeat.prepare.workspace_provision`, the repository's
`scripts/provision-worktree.sh`. Reuse takes 0.3 s. Its cold
first-activity p95 came from run 630088a4, created 4 s after a fault
killed its predecessor. That run queued until the next fault cleared,
and #20106 still graded it cold because no fault started inside its own
window.

**Expected behavior**
Project provisioning is reported, not charged to agent boot. A run
created while a fault's outage is in progress is graded as restart.

## What Changed

- `faultBeforeFirstActivity` takes outage windows and returns true when
any window, from fault start to ready, overlaps the run's span from
creation to its first activity. It used to take fault start instants
only.
- A run with `retryOfRunId` (the successor of an interrupted run) is
graded as restart.
- `collectWaveSpeed` reads each run's workspace operations. Provisioning
counts only when a `workspace_provision` operation has
`metadata.created: true`, meaning first-time creation of the workspace;
reuse (about 0.5 s) is left in boot.
- `bootWithoutProvisionMs` subtracts that first-time
`heartbeat.prepare.workspace_provision` span from agent boot for the
wave grade. Per-run boot breaches use it too.
- New report-only row `workspace_provision` per adapter and start, shown
only when the run created its workspace. It has no budget.
- `runMetrics` and the TTFT baseline tool are unchanged. `BaselineRun`
gains an optional `workspaceCreated`.

## Verification

- `npx vitest run` in `tests/restart-chaos`: 195 passed. New cases cover
a run created during an outage, a retry successor, provisioning counted
only for `created: true` through `collectWaveSpeed`, the provisioning
row and boot without provisioning.
- `node scripts/typecheck-test-projects.mjs tests/restart-chaos`: clean.

## Risks

- A slow provisioning step no longer fails the boot budget. It stays
visible on its own row, with no budget, because it runs the project's
own script.
- A run created during any outage, and any retry successor (including a
user Retry), is graded as restart even when it started quickly. Restart
recovery still measures it.
- One extra API read per run (workspace operations) during speed
collection. A failed read counts as not created, so boot is never
under-charged.

## 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 16:54:58 -06:00
DottaandClaude Opus 5.5 b43cccbb08 fix(runner): keep a restart continuation when a stale earlier continuation is reported lost (#20118)
## 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 runner reports
it as `provider_turn_lost_on_restore` and the controller starts one
same-conversation continuation. A later restart that loses the
continuation is answered the same way
> - With back-to-back restarts, the controller's checkpoint can miss a
continuation that the runner already accepted. On the next restore the
controller starts a fresh continuation, and the restored runner then
reports the unrecorded earlier continuation as lost
> - The event consumer treated that stale lost terminal as the run's
terminal, so the run failed while its new continuation was already
running
> - Recovery then refused to replay the failed run, and the task needed
a Retry. In an M1 parent/subtask task, the parent's Retry succeeded but
the parent stayed `blocked` on that subtask
> - This pull request makes the consumer skip a restart-lost terminal
for any turn other than the continuation it started
> - The benefit is that back-to-back restarts no longer turn a
recoverable lost turn into a failed run that needs Retry

## Linked Issues or Issue Description

Refs #20107

**What happened?**
Restart-chaos K14 wave w-20261108T213600-s9803 (local, an upgrade
between builds plus repeated restarts) at 070365404e. In task t02
(claude M1), the codex subtask CHA-7 failed with
`native_provider_terminal_failed: The runner restored the conversation
after process loss, but the previous turn is no longer active.` The
sequence:
1. Restore 1 lost turn `01a1bd17…`, and the controller started
continuation `01a1bd18-15ec…` (runner command 14). A restart followed
within a second, before the controller's checkpoint recorded that
continuation.
2. Restore 2 saw the checkpointed interruption of `01a1bd17…` and
started a fresh continuation, `01a1bd18-4cc4…` (command 24). The
restored runner also reported the unrecorded continuation
`01a1bd18-15ec…` as `provider_turn_lost_on_restore`.
3. Because a continuation was already started, the consumer returned
that stale terminal as the run's terminal. The run failed, the new
continuation was stopped (command 25), and automatic recovery refused to
replay it (`uncertain_provider_action`, `preserve_without_replay_v1`).
4. The parent CHA-2 asked CHA-7 to resume by comment, but an agent
comment cannot authorize a blocked replay, so the wake stayed
`deferred_issue_execution`. The parent's own Retry succeeded, but CHA-2
stayed `blocked` on CHA-7 (`R3:retry_did_not_complete`).

**Expected behavior**
A restart-lost terminal for an older, unrecorded continuation is
superseded by the continuation this restore started. The run continues
on that continuation and needs no Retry.

**Steps to reproduce**
1. Checkpoint a native session whose last terminal is a restart-lost
turn and whose active turn is null, so recovery starts a continuation.
2. Have the restored session report another turn (the unrecorded earlier
continuation) as `provider_turn_lost_on_restore`, either before or after
the new continuation starts.
3. Before this change, the run ends on that stale terminal.

**Paperclip version or commit**
070365404e (wave); branch rebased on current master.

## What Changed

- `native-session-runtime.ts`:
  - Records the turn id of the restart continuation it starts.
- New `supersededByRestartContinuation`, used by the consumer's
`resumeInterruptedTurn`, keeps consuming past a
`provider_turn_lost_on_restore` `turn.failed` when all of these hold:
    - the run was recovered from a checkpointed interruption;
- the failed turn is neither the checkpointed interrupted turn nor the
started continuation;
    - a continuation was actually started.
- The check first waits for the startup decision, because the consumer
starts before the continuation does.
- `native-session-runtime.test.ts`: a red/green test, with the stale
lost terminal arriving both after and before the continuation starts.

## Verification

- Red/green:
  - On master, both test cases end the run on the stale terminal.
- With the change, both resolve on the continuation's result. The
continuation is started once, and the stale `turn.failed` is still
appended to the journal.
- `vitest run` over the restart, recovery, continuation and terminal
test files in `packages/paperclip-runner`, including all of
`native-session-runtime.test.ts`: 9 files, 380 tests passed.
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck:typescript`
(`packages/paperclip-runner`): passed.

## Risks

- Low risk. The skip applies only to restart-lost failures of turns
other than the checkpointed interrupted turn and the started
continuation, and only after a continuation actually started. Real
provider failures, a loss of the continuation itself, and runs without a
checkpointed interruption keep their current handling.
- If startup fails, the startup decision still settles. The consumer
then falls back to the existing behavior and the run fails 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 16:44:13 -06:00
DottaandClaude Opus 5.5 412d49e48d fix(runner): resume an ACPX turn interrupted by a deploy instead of refusing the launch digest (#20112)
## Thinking Path

- The rule for upgrade-safe saved state: work saved by the old build
must resume under the new build.
- The K14 upgrade-mid-run chaos wave (`838e9bf3d2` → `f789f3e2af`) broke
that rule for Claude. The same heartbeat run resumed after the upgrade
restart, and the runner's resume probe (`runner.drain`) failed with
`ACPX durable launch profile digest does not match runner startup`
(`provider_state_incompatible`). t03 and t04's Claude subtask both
needed a board Retry. Codex crossed the upgrade cleanly.
- The ACPX launch profile digest covers the provider-pack authority and
the sidecar artifact hashes, so every deploy changes it.
- #18879 already re-binds a suspended session to the new digest. A
deploy that restarts the runner mid-turn leaves the same run with an
active turn, or with an open session, which is the state a same-build
lost-turn restore leaves behind. Neither was re-bound.
- A same-build restart already recovers both states safely: it reopens
an open session, and recovers an active turn through
`restore_conversation_after_lost_turn`, which is guarded by the
provider-lifetime fence. An upgraded build should take the same path.

## Linked Issues or Issue Description

Refs #18879

**What happened?**
A deploy restarted the runner while a Claude (ACPX) task was mid-run.
When the same run resumed under the new build, restore refused the saved
state with `provider_state_incompatible`. The task stopped and needed a
manual Retry, which started a fresh provider session and dropped the
conversation.

**Steps to reproduce**
1. Start a Claude task on build A and let it reach an active turn.
2. Upgrade to build B, which ships a new provider pack or sidecar build,
with a graceful restart while the turn runs.
3. The same run's resume fails with `ACPX durable launch profile digest
does not match runner startup`.

**Expected behavior**
The resumed run recovers exactly as it would after a same-build restart.
The conversation is restored, or the lost turn is closed through the
normal recovery path, with no Retry.

## What Changed

-
`packages/paperclip-runner/runner/crates/runner-core/src/acpx_provider_backend.rs`:
- `rebinds_settled_session` now also re-binds the saved digest for an
**interrupted turn or open session of the same heartbeat run**
(`rebinds_interrupted_turn`).
- The re-bind requires exactly the same-build recovery preconditions: no
accepted semantic result, no pending runtime request, no unconfirmed
provider exit, and a dormant goal. It also keeps the existing
requirements: no candidate admission, and the same sidecar command and
arguments.
- Recovery then runs unchanged. The provider-lifetime fence still
decides whether the conversation is restored or the lost turn is closed.
- **Relocated installs:** an upgrade can install the same launch files
under a new directory, as an `npx` versioned cache, a new image layout
or a new checkout does. The K14 harness moves between worktrees. The
re-bind now accepts a launch of the same shape: the same executable and
sidecar file names, and identical non-path arguments. It then records
this startup's runner-owned paths in the saved descriptor. A renamed
executable or a changed argument stays strict.
- An active turn or open session saved by a *different* run stays
strict, as before. So do suspended sessions with undelivered events, and
every qualified-release binding (ACPX, agent server and command digest).
- Tests (Rust, `acpx_provider_backend`):
-
`interrupted_turn_of_the_same_run_rebinds_to_the_upgraded_runner_launch_profile`:
red on master. An old-digest saved state with an active turn restores,
the digest is re-bound, and identity and command digest are kept.
-
`open_session_of_the_same_run_rebinds_to_the_upgraded_runner_launch_profile`:
restore gets past the saved-state check, to provider start.
- `saved_sessions_rebind_to_an_upgraded_build_installed_at_a_new_path`:
red on master and on the first fix, with the production error. It covers
an interrupted turn of the same run and a settled session attached by
the next run, both moved to a new install directory.
-
`interrupted_turn_after_upgrade_stays_strict_when_lost_turn_recovery_is_unsafe`:
each unsafe guard still fails with `provider_state_incompatible` and
leaves the saved state untouched.
- The existing strict tests for other runs are unchanged and still pass.
- `packages/paperclip-runner/docs/durable-recovery.md`: documents the
extended re-bind.
- `tests/acpx_warm_attachment.rs`: the end-to-end test
`restores_a_turn_lost_to_a_runner_upgrade_under_the_new_launch_profile`,
from the Phase 2 session's parallel fix. It fails on master with the
production error and passes here.

## Verification

- `cargo test -p paperclip-runner-core --lib acpx_provider_backend`: 44
passed.
- The full `paperclip-runner-core` lib suite: 585 passed. The 3 failures
are timing-based `task_memory` kill-monitor tests on macOS; that file is
untouched (last changed 5 days ago). CI runs them on Linux.
- `cargo fmt --check`: clean.
- Live: the first K14 rerun, at 070365404e, still failed for 3 Claude
runs. The cause was the install path: the saved sidecar path pointed
into the old build's worktree. Fixed in 72e020e13b; a second K14 rerun
has been requested.

## Risks

- **The restored conversation runs on the new provider pack.** That is
already the case for re-bound suspended sessions. Session start still
verifies every artifact and the restored provider identity against the
qualified command digest. A changed upstream release still fails strict.
- **Old provider process.** For an active turn, lost-turn recovery waits
for the provider-lifetime fence before restoring. For an open session,
behavior matches the same-build restart, which reopens without the
fence.
- **A state that really is incompatible** (an upstream provider release
change):
- **Between turns**, the common upgrade case: the next run's checkpoint
carries `allow_replacement_after_resume_failure`, so the refusal opens a
fresh provider session automatically, with no Retry. A new test,
`continues in a fresh session when a new run's saved session is
incompatible…`, pins this in `native-session-runtime.test.ts`.
- **Mid-turn, same run:** this still stops for a board Retry, by design.
The effects of the lost turn are unknown, and the automatic replacement
sweep (`decideNativeReplacement`) only replaces a session when it has a
complete effect inventory.

## 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 16:34:23 -06:00
DottaandClaude Opus 5.5 15b987d9b8 fix(runner): a finish or block waits for held calls before it is judged (#20108)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Restarts must be invisible to a task: an agent that was working
keeps working after the control plane comes back
> - Restart chaos t05 (Daytona warm wave, codex, K4 hold) ended a task
as blocked even though its document save succeeded
> - #20069 refuses a finish or block that the agent decided before it
saw results that had already returned. Here the results had not returned
yet when the block was checked: after the reattach, the held calls and
the later block are handled at the same time
> - This pull request makes a finish or block wait, for a bounded time,
for earlier calls of its turn that have not returned, and then apply the
same check
> - The benefit is that a controller outage during a Paperclip tool call
no longer turns into a false "blocked" task

## Linked Issues or Issue Description

Refs #19831 (durable ownership plan). Restart chaos wave
`w-20261108T192459-s9501`, task t05 (Daytona warm, codex, C1, K4 hold of
182 s, master c5a172a183, which includes #20069).

**Problem**

1. 19:37:01: the follow-up comment arrives. The agent reads the brief
and calls `write_document`.
2. 19:37:44 to 19:40:51: K4 hold. Codex keeps the call pending and
re-samples the model: "The save request is still pending", then
`read_document` (also pending), then `paperclip_block`.
3. 19:42:02, after the reattach: the controller recovers the held write
and read (`recoverPendingSemanticInputs`) while the Runner delivers the
block. The block reaches the check at seq ~331–334. The write's result,
with the FOLLOWUP line saved, is committed at seq 337. The check saw no
returned call, so the block was recorded and the issue rested `blocked`
with no Retry.

So held calls are answered after ready (the save succeeded, the brief
has the marker). The defect was the order in which the terminal call was
judged.

## What Changed

- `packages/paperclip-runner/src/live/terminal-call-freshness.ts`:
- `pendingEarlierToolCalls`: calls made before the terminal call that
have neither returned nor reached the agent;
- `settleEarlierToolCalls`: waits, bounded at 30 s
(`TERMINAL_CALL_SETTLE_TIMEOUT_MS`), until none is pending, then reports
which returned unseen and which are still pending;
- `staleTerminalCallResult` also names still-pending calls: "has not
returned yet. Wait for its result (do not repeat a write until it
returns)…", still `terminal_call_before_results`, retryable.
- `runnerd-codex-transport.ts`: before dispatching `paperclip_finish` or
`paperclip_block`, waits for those calls and re-checks session identity.
It refuses the terminal call if any earlier call returned unseen or is
still pending.
- Scope: `DurablePrpCodexTransport` serves Codex and ACPX on local, warm
Daytona and per-turn Daytona, so every path that reattaches to a
surviving Runner is covered. The wait applies only to terminal calls
with earlier unreturned calls, so it adds nothing before `turn.start`.
- Not covered: the external-driver path
(`drivers/external/runnerd-external-driver.ts`) has its own semantic
handler without either check. It is recorded as a campaign follow-up.

## Verification

Red/green:
- `runnerd-codex-transport.test.ts` "refuses a terminal call that
arrives before a held call's result (restart chaos t05)": the write is
started without a result, the block arrives, and the write's
`semantic_tool.result` lands 100 ms later.
- On master's transport and guard: fails, the block is dispatched
(`handler` called once).
- With this PR: the block is refused with
`terminal_call_before_results`, naming the returned write.
- `terminal-call-freshness.test.ts`: pending versus returned, a result
that lands during the wait, a call still pending after the bound, no
wait when everything was seen, and a session that goes away.
- Both files: 300 passed. `tsc --noEmit -p packages/paperclip-runner` is
clean.

Live: the crash point `runner.semantic_tool.after_input_before_dispatch`
(from #20069) holds K4 during a Paperclip tool call. A Daytona run
against this branch is requested from the slot owner after merge.

## Risks

- A finish or block made in the same model step as a write (parallel
tool calls) now waits for the write and is refused once, because the
agent had not seen the write's result. The agent calls it again after
reading the result: one extra model step in that case. #20069 already
behaved this way whenever the write returned first.
- A Paperclip call that never returns delays a terminal call by 30 s,
and the terminal call is refused. Recovery answers held calls after
ready or disconnects the Runner, so the refusal cannot repeat
indefinitely in practice.
- No schema or persisted run-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)
- [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 (code
comments; 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>
canary/v2026.1108.0-canary.24
2026-11-08 16:08:06 -06:00
DottaandClaude Opus 5.5 a8bbdf237c fix(runner): reopen the ACPX session at turn.start when it can be safely reopened (#20110)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A native Claude ACPX run must survive restarts and suspensions. A
turn stopped for suspension drops the live ACPX session and leaves the
saved lifecycle `prepared`
> - The next `turn.start` checked for a live session before anything
else, so it failed with "ACPX session is not open". That happened even
though the saved session was safe to reopen
> - In restart chaos this made a Claude approval task (G1 t03) need a
Retry after repeated restores
> - This pull request makes `turn.start` reopen a reopenable session
before it starts the turn
> - The benefit is that a suspended or restored Claude run keeps going
on its own, with no Retry

## Linked Issues or Issue Description

Refs #20089

**What happened?**
In a local restart-chaos G1 (approval) wave, Claude ACPX task t03 failed
after repeated restores with `ACPX session is not open` and needed a
Retry. The Retry overwrote the session directory, so the exact sequence
could not be read back. The same error reproduces directly with
`turn.stop` (suspension) followed by `turn.start` on the same session:
the stop clears the live session and sets the lifecycle to `prepared`,
and `turn.start` never reopens it.

**Expected behavior**
When the saved session can be reopened, `turn.start` reopens it, the
same way `session.open` does, and then starts the turn. "Can be
reopened" means: the conversation identity is recorded, the provider
exit is confirmed, the session belongs to this run, and the lifecycle is
`prepared`, `suspended` or `session_open`. A session that was closed on
purpose, or whose provider exit is unconfirmed, still fails.

**Steps to reproduce**
1. `run.prepare`, `session.open`, then `turn.start`.
2. `turn.stop` (suspension stop).
3. `turn.start` again. Before this change, it fails with "ACPX session
is not open".

**Paperclip version or commit**
master at f789f3e2af. Branch rebased on current master.

## What Changed

- `acpx_provider_backend.rs`: `turn.start` checks whether there is no
live session and the saved state is reopenable. If so, it reopens
through `open_session` first, and the reopen's `session.resumed` event
comes before the turn's events. The previous body moved unchanged into
`start_turn_in_open_session`.
- `tests/acpx_warm_attachment.rs`: a new test,
`reopens_the_conversation_for_a_turn_after_a_suspension_stop`. It drives
prepare, open, turn, stop, turn and expects the second turn to be
accepted with `session.resumed`. It also checks that after
`session.close`, `turn.start` still fails.

## Verification

- Red/green: the new test fails on master with "ACPX session is not
open" and passes with the change. `cargo test -p runner-core --test
acpx_warm_attachment`: 3/3 passed.
- I also ran the full `runner-core` crate suite. Five tests failed: four
`task_memory` monitor tests and `unconfirmed_suspension_state...`. Each
of them passes on an unchanged master checkout, and the ACPX one also
passes when rerun in this branch, so they are timing-dependent and not
caused by this change.

## Risks

- Low risk. A reopen happens only under the same conditions in which
`session.open` would already succeed for this run. A closed session and
an unconfirmed provider exit stay fail-closed. The order of events
changes only by adding `session.resumed` ahead of the turn's events.

## 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 15:46:11 -06:00
DottaandClaude Opus 5.5 a88e23fa34 fix(runner): read an uncommitted turn start as empty history when the event window is complete (#20107)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A native run must survive repeated control-plane restarts; each
restore reconciles the turn its checkpoint names as active
> - That reconciliation reads the turn's history. When the provider has
no paginated history, the runnerd transport rebuilds it from the
committed runner events
> - After back-to-back hard restarts, the checkpoint can name an
accepted turn whose start was never committed. The runner was killed
after journaling `turn.start` and before the provider emitted anything
> - The rebuild treated every missing start as lost history and failed
with `codex_history_incomplete`, so the task needed a Retry
> - This pull request treats a missing start as empty history when the
committed window is provably complete
> - The benefit is that a run survives back-to-back restores, as it
already survives one

## Linked Issues or Issue Description

Refs #20074

**What happened?**
In restart-chaos wave w-20261108T200620-s9701 (local, K4/K6 + M1,
back-to-back K4 restores), three runs failed on the second restore. Two
were Claude ACPX C1 tasks; the third was an M1 parent with its subtask.
They failed with `native_session_recovery_failed:
HarnessReconciliationError: codex_history_read_failed: thread/items/list
requires supported paginated history; Error: codex_history_incomplete:
requested turn start is outside the retained runner event window`, and
each needed a Retry.

The sequence:
1. The first restore lost the in-flight turn and started a continuation
turn. ACPX echoes the requested turn id, so the checkpoint named it as
active.
2. Six seconds later a second K4 SIGKILL killed the runner. The runner
had journaled that `turn.start` (now `execution_indeterminate`), but the
provider had emitted nothing, so no `turn.started` was committed and the
runner outbox was empty.
3. On the second restore, `thread/items/list` for that turn hit the
guard, although the committed window was complete: source sequences
1–25, nothing evicted.

**Expected behavior**
The second restore treats the never-started turn like the first restore
treated its lost turn. The runner reports it lost on restore, and
recovery starts a continuation with no Retry.

**Steps to reproduce**
1. Have a checkpoint name an accepted turn whose `turn.started` was
never committed. For example, kill the runner after `turn.start` and
before the provider emits anything.
2. Restore the session. Before this change, recovery fails with
`codex_history_incomplete`.

**Paperclip version or commit**
master at 88835e624a plus #20094 (the wave). Branch rebased on current
master.

## What Changed

- `runnerd-codex-transport.ts`: a new
`committedEventWindowComplete(state)`. It is true only when the
committed events are exactly source sequences 1 to `ackedSourceSeq`:
none missing, none duplicated, none evicted.
- In the `thread/items/list` fallback, a turn with no committed start
returns empty history when the window is complete. Otherwise it still
throws `codex_history_incomplete`.

## Verification

- Red/green connected test in `runnerd-restart-continuation.test.ts`:
"starts a new turn when the checkpoint names an accepted turn whose
start was never committed". It uses the real runnerd and the fake Codex
server, and holds the provider start with `--turn-started-gate`.
  - Without the change, it fails with the exact production error.
  - With the change, the run completes on a continuation turn.
- Unit test: `committedEventWindowComplete` is false for a gap, a
missing first event, duplicates and no state.
- `npx vitest run` over every Codex, restart and recovery test file in
`packages/paperclip-runner`: 45 files, 1158 tests passed.
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck`
(`packages/paperclip-runner`): passed.

## Risks

- Low risk. The empty history applies only when every acknowledged event
is still retained, so no event of that turn can have existed and been
dropped. Any evicted or gapped window keeps failing closed.
- Known gap, recorded as a follow-up: if eviction did remove events of a
turn the checkpoint still names, recovery still fails closed. The
planned fix is to never evict events of an unresolved checkpointed turn.

## 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 15:37:11 -06:00
DottaandClaude Opus 5.5 83a229ae8c test(chaos): grade a fault-hit run as a restart, not a cold start (#20106)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - The restart chaos harness grades speed against the native speed
budgets, and a regression fails the wave
> - It grades a run's time to first activity as a cold or warm start,
and restart recovery separately
> - Fault receipts carry no run ids, so a run that a fault hit before
its first activity was graded as a cold start
> - In a K4/K6 wave, the two slowest codex cold samples were runs that a
K6 SIGKILL hit before their first activity, so the cold p95 breach was
not a cold start
> - This pull request grades such a run as a restart
> - The benefit is that cold and warm rows measure only starts with no
fault, and restart cost stays in restart recovery

## Linked Issues or Issue Description

Refs #20071, #20094

**What happened?**
Wave `w-20261108T200620-s9701` reported a codex cold
time-to-first-activity p95 of 29.9 s against a 17 s budget. The two
slowest samples were runs that a K6 restart hit before their first
activity.

**Expected behavior**
A run whose first-activity window contains a fault start is graded as a
restart, not as a cold or warm start.

**Actual behavior**
The run was graded as a cold start, and the restart time counted as
cold-start latency.

## What Changed

- `faultBeforeFirstActivity(run, faultStarts)`: true when a fault
started between the run's trace start and the end of its raw
first-activity span (or first-token span when no activity span exists).
- `collectWaveSpeed` sets such a run's phase to `restart` before it
removes outage time. Cold, warm and single-run grading already skip
restart runs. The run still counts in restart recovery through the
fault's run timing.
- A test covers the helper and the exclusion from the cold row.

## Verification

- `npx vitest run wave-speed` in `tests/restart-chaos`: 10 passed.
- `node scripts/typecheck-test-projects.mjs tests/restart-chaos`: clean.

## Risks

- A run with no first-activity or first-token span counts as hit when
any fault starts after its trace start. Such a run has no cold sample to
grade anyway.
- A fault that starts just before a run's trace start does not count,
and outage removal handles it as before.

## 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>
canary/v2026.1108.0-canary.23
2026-11-08 15:30:45 -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 c4ba3974a7 fix(heartbeat): close run admission before a graceful shutdown closes its listener (t09) (#20102)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A graceful restart (K2) drains the control plane: it closes HTTP
admission, suspends running runs, and the next boot resumes them
> - Run admission stayed open while the HTTP listener closed.
Heartbeat's shutdown flag was set only later, inside hot-restart
preparation
> - A run that finished in that window released its issue and promoted
the queued comment wake. That started a new run that had no callback
listener
> - A remote warm continuation then failed with
`local_runtime_api_listener_unavailable`, and the task needed a Retry
(restart chaos t09)
> - This pull request closes run admission before the listener closes,
so the promoted wake stays queued for the next boot
> - The benefit is that a comment sent during a deploy continues on its
own after the restart

## Linked Issues or Issue Description

Refs #19596

**What happened?**
In restart-chaos wave w-20261108T192459-s9501 (Daytona warm, Codex C1,
K2), a K2 SIGTERM started a graceful drain at 19:42:52 UTC, and the HTTP
listener closed first. At 19:43:03 the running turn finished and
released its issue. That promoted the queued comment wake, and
`startNextQueuedRunForAgent` started a new run about 11 s into the
drain. Backend setup resolved the local runtime API URL, found the
listener closed, and threw `local_runtime_api_listener_unavailable`. The
remote target is excluded from the closed-listener handoff, so the run
failed, and the task waited for a manual Retry.

**Expected behavior**
No queued run starts once a graceful shutdown has begun. A wake promoted
during the drain stays queued, and the next boot starts it with no
Retry.

**Steps to reproduce**
1. Run a remote warm task and post a comment while its turn runs, so the
comment wake queues behind it.
2. Send SIGTERM to the control plane just before the turn finishes.
3. Before this change, a new run starts during the drain and fails with
`local_runtime_api_listener_unavailable`.

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

## What Changed

- `heartbeat/run-admission.ts` (new): a process-wide run admission gate
(`closeProcessRunAdmission`, `isProcessRunAdmissionClosed`). HTTP routes
build their own heartbeat instances, so the gate cannot live in one
instance.
- `heartbeat/queue.ts`: a new optional dependency,
`isRunAdmissionClosed`, which defaults to the process-wide gate.
`startNextQueuedRunForAgent`, `resumeQueuedRuns` and
`resumeQueuedRunsAfterDrain` start nothing (and read nothing) once it
returns true. Wakes are still recorded and promoted; only the start is
held.
- `heartbeat.ts`: also honors its own `shutdownInProgress` flag.
- `shutdown.ts`: `closeHttpListenerForShutdown` takes
`closeRunAdmission` and calls it first, before it checks or closes the
listener. `index.ts` passes `closeProcessRunAdmission`.

## Verification

- Red/green, new tests:
- `queue.test.ts`: "starts no run once shutdown closed run admission"
(for `startNextQueuedRunForAgent` and `resumeQueuedRuns`), and "honors
the process-wide run admission gate in every heartbeat instance".
- `shutdown.test.ts`: "closes run admission before it stops accepting
requests".
- `pnpm exec vitest run src/services/heartbeat/queue.test.ts
src/services/heartbeat/recovery.test.ts
src/__tests__/heartbeat-comment-wake-batching.test.ts
src/services/native-runtime/native-startup-retry.integration.test.ts
src/shutdown.test.ts` (server): 5 files, 277 tests passed.
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck` (server): passed.

## Risks

- Low risk. Only queued-run starts are held during a shutdown that has
already begun; wakes, drains, suspension and finalizers are unchanged.
The next boot's queued-run dispatch starts held runs.
- Known remaining window: a run admitted just before shutdown can still
reach backend setup after the listener closed. A local runner hands off
to restart recovery there. A remote warm continuation still fails,
because the remote target is excluded from that handoff (#19596) and the
bootstrap retry does not cover warm continuations. This change removes
the t09 sequence, where the run started after shutdown had begun; it
does not remove that narrower window.

## 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 14:59:55 -06:00
DottaandClaude Opus 5.5 3bf51913ef fix(daytona): gzip transport compression for sandbox images without zstd (#20104)
## Thinking Path

- Per-turn remote sandboxes are the default, so every remote turn
uploads the workspace into a fresh Daytona sandbox.
- The Daytona plugin compresses large uploads with zstd, but only when
the sandbox has a `zstd` binary. Without one, the upload goes raw: 220
MB for the paperclip seed.
- The default Paperclip runner image has zstd, so it is already covered.
A sandbox image without zstd is not: for example a user-supplied
`config.snapshot` built on plain `debian:bookworm`. Such an image still
has gzip.
- This adds gzip as a fallback codec for those images. It is a
robustness fallback, not a speedup for the default image.

## Linked Issues or Issue Description

Refs #20100

**What happened?**
On a Daytona sandbox image without a `zstd` binary, every remote turn
uploads the workspace seed uncompressed. Measured live with the
paperclip seed: raw takes 18.6–28.8 s, against 6.1–16.0 s compressed.

**Steps to reproduce**
1. Use a Daytona snapshot whose image has gzip but no zstd.
2. Run a remote task on a large repository and inspect the `transfer`
span: there is no `transfer.compression.codec` attribute, and the full
raw size is uploaded.

**Expected behavior**
Large workspace tarballs are compressed in transit whenever the sandbox
can decompress them.

## What Changed

- `packages/plugins/sandbox-providers/daytona/src/file-sync.ts`:
- The existing availability probe (the same round trip as `mkdir`) also
reports `gzip`.
- Codec choice: zstd when the sandbox has it and Node supports it
(unchanged), otherwise gzip, otherwise raw (unchanged).
- gzip runs at level 1. On the 220 MB paperclip seed it produces 69.6 MB
in 1.26 s on the host; zstd -3 produces 57.6 MB in 0.54 s.
- In the sandbox, gzip decompresses with `gzip -dc -- <scratch> > <raw
scratch>`. It reuses the existing explicit `chmod`, atomic `mv -f`,
failure sweep, private host temp directory, and minimum-saving fallback.
- A failed or partial decompress exits 49, the raw scratch is never
promoted, and every scratch file is swept. The workspace sentinel and
`baselineSha256` checks still run before `turn.start`.
- The `transfer.compression.codec` span attribute is now `zstd` or
`gzip` (still a closed set).
- Tests in `file-sync.test.ts` (red on master):
- A real shell promotion on a sandbox that reports no zstd: the upload
is `.gz` and under half the size, `gzip -dc` runs, and the target is
byte-identical with mode 0600 and no scratch left.
- A truncated gzip upload fails the sync, never creates the target, and
leaves no scratch.
- Codec preference: zstd when both are present, gzip when only gzip is,
raw when neither is.

## Verification

- `npx vitest run` in `packages/plugins/sandbox-providers/daytona`: all
pass. The existing zstd suite runs on this host because it has zstd.
- `tsc --noEmit -p packages/plugins/sandbox-providers/daytona`: clean.
- Live Daytona run on the runner image, 2 vCPU, 220 MB seed, through the
real `performSyncIn` with each codec forced through the probe. The
sha256 matched every time.

  | Codec | Times |
  |---|---|
  | raw | 28.8 s, 18.6 s, 20.2 s, 22.8 s |
  | zstd | 6.9 s, 6.1 s, 16.0 s, 8.5 s |
  | gzip | 9.8 s, 16.8 s |

Network variance is large. Both codecs roughly halve the raw upload or
better.

## Risks

- **Host CPU:** about 1.3 s of streamed gzip per large upload, on the
libuv thread pool, and only when the sandbox lacks zstd. Files under 8
MB, or that save less than 10%, still go raw.
- **No compressor at all:** a sandbox without gzip or zstd uploads raw,
as today.
- **Probe caching:** the probe runs on every sync, on the `mkdir` round
trip it already makes, so it adds no latency. It stays uncached,
following the existing design's rule that one principal's observation is
never reused for another.
- **Observability:** one new value, `gzip`, in an existing closed-set
span attribute. The endpoint gate is unchanged.

## 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 14:52:56 -06:00
DottaandClaude Opus 5.5 f789f3e2af fix(environments): a consented environment delete releases restore-source protection so it never stays blocked (#20099)
## Thinking Path

- Deleting an environment with consent destroys its kept sandboxes.
#20085 added failed runs' restore-source sandboxes (`retain_on_failure`)
to that teardown, and the delete dialog now tells the operator that the
consented delete destroys those files.
- But every teardown path refuses a lease whose sandbox carries a
`workspaceRestoreRecovery` marker
(`legacyShutdownWorkspaceResourceProtected`). That is correct for
ordinary cleanup, since the files may be the only copy.
- So the consented delete claimed the restore sources for cleanup, every
teardown returned without destroying, and the delete returned 409
`pending_sandbox_cleanup` forever: a refusal the user cannot act on.
- The operator's consent is exactly the decision the protection waits
for, so the delete releases it explicitly and audits who did, then
proceeds.

## Linked Issues or Issue Description

Refs #20048, follow-up to #20085

**What happened?**
In Daytona warm wave w-20261108T192459-s9501, the harness's consented
environment delete returned 409 `pending_sandbox_cleanup` for minutes
(it retried every 3 s). Two restore-source leases (8b26e044, bcb897c9)
had been claimed for cleanup with `environment_deleted`. The activity
log shows a cleanup attempt on every retry, each returning without
destroying. On the kept database copy,
`legacyShutdownWorkspaceResourceProtected` returns `true` for both,
because of their `workspaceRestoreRecovery` marker. Their restore
recovery had already succeeded (workspace sync finalized). Phase 3
deleted the two sandboxes by hand.

**Steps to reproduce**
1. A failed run leaves a `retain_on_failure` lease with
`workspaceRestoreRecovery` metadata (sandbox stopped).
2. `DELETE /api/environments/:id?destroyReusableSandboxLeases=true`.
3. The lease is claimed (`pending_cleanup`), the teardown refuses it,
and every retry of the delete returns 409.

**Expected behavior**
The consented delete destroys the restore source (the operator was told
the files go with it) and the environment is deleted. No 409 the user
can't act on.

## What Changed

- `server/src/services/environment-runtime.ts`: new
`releaseRestoreSourcesForEnvironmentDelete({ environmentId, consentedBy
})`. For each of the environment's restore-source sandboxes
(`retain_on_failure` with `workspaceRestoreRecovery`, any non-terminal
status including an earlier `pending_cleanup` claim), it removes the
marker from every lease row on that sandbox and records
`restoreSourceReleasedByEnvironmentDelete: { consentedBy, releasedAt }`.
`destroyReusableSandboxLeasesForEnvironment` takes `consentedBy` and
releases first.
- `server/src/routes/environments.ts`: a consented delete whose only
blockers are pending cleanup or kept sandboxes releases restore
protection before the pending-cleanup retry, so leases an earlier
attempt left claimed are freed too. It then passes `consentedBy` to the
teardown.
- Tests:
- A restore source now carries the real `workspaceRestoreRecovery`
marker, and the consented teardown destroys it. This failed before the
fix (`{ destroyed: 0, failed: 1 }`), matching the wave.
- The route test asserts the release runs before the pending-cleanup
retry.

## Verification

- `cd server && npx vitest run src/__tests__/environment-runtime.test.ts
src/__tests__/environment-service.test.ts
src/__tests__/environment-routes.test.ts`: 347/347 pass.
- The restore-source test fails on master with `failed: 1`.

## Risks

- **Losing restore files without consent.** The release runs only on the
explicit consented delete path (`destroyReusableSandboxLeases=true`),
and only when the remaining blockers are pending cleanup or kept
sandboxes. It is recorded on every released row. Leases with a pending
native export are still skipped by the teardown.
- **Ordinary cleanup.** Unchanged: restore protection still holds
everywhere else.

## 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>
canary/v2026.1108.0-canary.22
2026-11-08 14:27:00 -06:00
DottaandClaude Opus 5.5 2a16be36ab docs(plans): per-turn follow-ups without re-uploading the repository (#20100)
## Thinking Path

- Per-turn remote sandboxes stay the default while warm reuse (#20048)
is on hold.
- On the paperclip clone, a per-turn follow-up spends about 13 s in
`workspace_sync.transfer`, though its changes pack in 0.5 s: every fresh
sandbox receives the whole 70 MB (gzip) seed again, at about 5 MB/s from
the controller.
- The coordinator asked for a design that uploads only changed files
into a fresh sandbox, with a full-upload fallback, measured against the
spans. It also asked to build it only if the implementation is bounded
and safe.

## Linked Issues or Issue Description

Refs #20048

**What happened?**
Per-turn follow-ups on large repositories wait about 13 s re-uploading
the full workspace seed even when almost nothing changed (pack 0.54 s,
transfer 13.3 s, time to first token about 31 s).

**Steps to reproduce**
1. Run `tests/restart-chaos/ttft-baseline.ts --env daytona
--workspace-repo <paperclip clone>` with per-turn sandboxes.
2. Compare `workspace_sync.pack` and `workspace_sync.transfer` on the
follow-up turn.

**Expected behavior**
A follow-up uploads only its overlay into a sandbox that already holds
the seed, falling back to the full upload when unsure.

## What Changed

- `doc/plans/2026-11-08-incremental-per-turn-workspace-upload.md`. It
contains:
- the measured span table and the size analysis (220 MB archive, 70 MB
gzip, about 5 MB/s);
- the expected saving: about 12–13 s per follow-up, time to first token
about 31 s → about 18 s;
- a design keyed by seed generation with a content-hashed manifest,
using a Daytona snapshot (preferred) or a Daytona volume to hold the
seed;
  - the overlay-only turn flow, with a verified fallback;
  - one bounded experiment to choose the seed location before building.
- Not built yet: both seed locations need provider capabilities
(snapshot build time, volume read speed) that must be measured first, so
the implementation isn't bounded until the experiment picks one.

## Verification

Docs only.

## Risks

None at runtime.

## 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 14:21:24 -06:00
DottaandClaude Opus 5.5 1b7254206f fix(recovery): replay a preparation a restart interrupted once proof shows no provider work started (#20072)
## Thinking Path

- Restarts are product failures: a task interrupted by a restart must
resume on its own, never wait for a user Retry.
- A run interrupted during preparation, before any provider work, is
safe to replay; the agent never touched the workspace. Paperclip already
has the proof (`isInterruptedNativePreparation`) and the settle
(`settleInterruptedNativeBootstrap`) that replay such a run in the
uncharged interrupted-preparation lane.
- But a graceful shutdown terminalizes that run inside the draining
process, where the proof cannot hold yet: the owning controller is still
that process, and its sandbox lease may still be cleaning up. So
recovery records `preserve_without_replay_v1` with replay blocked.
- When the proof becomes available (the next process boots, and the
lease is released with a confirmed stop), nothing re-judges the hold.
The only re-evaluation point runs after a pending-cleanup sweep, so the
task waits for a manual Retry.
- The coordinator set the rule: replay automatically with durable proof
of no provider work; anything uncertain stays held. This PR adds the
re-evaluation point and no new proof logic.

## Linked Issues or Issue Description

Refs #20048

**What happened?**
In Daytona warm wave w-20261108T142906-s9501, task t05: scheduled retry
c99b3a2e was 2 s into preparation (legacy, stage `preparing`, no runtime
mode, no events, no finalization) when the K2 graceful shutdown
interrupted it. Terminalization in the draining process recorded
`legacy_execution_requires_reconciliation` with
`preserve_without_replay_v1` and replay blocked, while its lease was
still `pending_cleanup`. The lease was released with a stop receipt 2 s
later, and the next process started, but the hold was never re-judged.
The harness clicked Retry at 14:44:27.

**Steps to reproduce**
1. Start a run that is still in preparation (legacy, `preparing`,
adapter `paperclip_runner`).
2. Gracefully shut down the server; terminalization records a
preserve-without-replay hold.
3. Let its lease release with a confirmed stop, and restart the server.
4. The hold stays `blocked`; the task needs a manual Retry.

**Expected behavior**
Once the owning controller is proven gone and every lease is released
with a confirmed stop, the ownership reconciler re-judges the hold with
the existing proof. With no provider work and every cleanup confirmed,
the hold is settled and the preparation is replayed with no attempt
charged. Possible provider work, a live controller, or an unfinished
cleanup keeps the hold.

## What Changed

- New ownership kind `legacy_interrupted_preparation_hold`, in
`server/src/services/interrupted-preparation-hold-settlement.ts` and
registered in `recovery/ownership-registry.ts`.
- **Listing:** legacy runs that are `interrupted` or `failed`, in stage
`preparing` with no `runtimeModeResolvedAt`. Each must have a
system-recorded `legacy-execution:<run>` hold: resolved/blocked,
`preserve_without_replay_v1`, replay blocked, no owning user, and none
of `ownerGoneAttestation`, `explicitUserContinuation` or
`executionReconciliation`. Every lease must be released with no failed
cleanup, so a lease that settles later is listed on the next pass.
- **Owner:** the run's recorded controller
(`legacyControllerOwnerStamp`). The shared reconciler settles only after
`proveOwnerGone` proves it gone. A missing stamp, or one from another
host or PID space, is unprovable and stays held. There is no age
fallback.
- **Settle:** re-checks the existing durable proof
(`isInterruptedNativePreparation`: no coordinator, result or execution
events; leases released with stop receipts; workspace repair when
needed). It then resolves the hold through
`settleInterruptedNativeBootstrap` as `false_positive` with replay
allowed and continuation pending, delivered through the existing
workspace-recovery queue in the uncharged interrupted-preparation lane.
Its row locks make the transition happen once; the settle reports
settled only when it resolved holds.
- `server/src/services/legacy-execution-recovery.ts`:
`settleInterruptedNativeBootstrap` takes an optional `proof`, recorded
in the `issue.recovery_action_resolved` activity details as
`ownerProof`, and an `onHoldsResolved` callback.
- `server/src/__tests__/interrupted-preparation-hold-settle.test.ts`,
K2-during-preparation shape, run through the reconciliation pass:
- settled with a dead controller in this PID space, with the audit entry
naming `pid_dead`;
- kept on a `turn.started` event, a stamp from another process space, a
missing stamp, the current process, a lease still cleaning up, an
operator owner-gone attestation, and a user continuation;
  - two concurrent settles produce one resolution.
- `ownership-reconciliation-report.test.ts`: adds the kind to the list
of settling kinds.

**Previous-release state:** holds written by the previous release
(`preserve_without_replay_v1`, replay `blocked`) are what this
re-judges, through the same proof. A run without a recorded controller
stamp stays held. No saved state changes shape.

## Verification

- `cd server && npx vitest run
src/__tests__/interrupted-preparation-hold-settle.test.ts`: 9/9 pass.
Removing the kind registration makes the settle case fail.
- The ownership, retained-orphan and recovery suites (19 files) pass,
after adding the kind to the report's settling-kinds list.
- Not yet covered: the Daytona warm wave rerun, on measure/remote-warm
with this change.

## Risks

- **Replaying work that already ran.** Settlement requires both the
shared owner proof and the existing durable no-provider-work proof.
Anything unprovable stays held.
- **Overriding an operator.** Only holds the system recorded are listed;
attested, continued or owned holds are never touched.
- **Load.** The listing is a filtered query on the 30 s reconciliation
pass, gated so a run with an unsettled lease is not polled.

## 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 14:21:20 -06:00
DottaandClaude Opus 5.5 88835e624a test(chaos): fail M1 fast on a blocked subtask and grade interrupted waves (#20094)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - The restart chaos harness proves that real agent tasks survive
control-plane restarts
> - In a K4/K6 wave with the M1 multi-agent scenario, one subtask
failed. Its parent waited on it, and the harness kept watching for over
50 minutes
> - When the operator stopped the wave, the harness wrote no grade
files, so the 17 finished tasks had no grade
> - Separately, master's harness test for time to first activity failed
after #20077 changed how time is measured from run creation
> - This pull request makes M1 fail fast on a blocked subtask, grades
the finished tasks of an interrupted wave, and aligns the speed grade
with #20077
> - The benefit is shorter waves with a grade for every task, and a
green harness suite on master

## Linked Issues or Issue Description

Refs #20071, #20077, #20088

**What happened?**
Wave `w-20261108T181313-s9701` (local, codex and claude, A1/C1/M1, K4
and K6) ran 71 minutes against a planned 30. Task t05 (M1) delegated
CHA-8 and CHA-9. The CHA-8 run failed after a K4 restart (the defect
that #20088 fixes), and CHA-8 went to `blocked`. The observer kept
waiting for CHA-8 to finish. After SIGINT, the harness threw before
grading, so no task had a grade file. Also, `wave-speed.test.ts` fails
on master: #20077 changed `runMetrics` to measure from the start of
`heartbeat.queue`.

**Steps to reproduce**
1. Run an M1 task whose subtask run fails and leaves the subtask
`blocked`.
2. See the observer wait until the parent deadline.
3. Send SIGINT to the harness and see that no grade files are written.

**Expected behavior**
A blocked subtask ends the wait, and the parent is graded as a failure
with a `task_child_blocked` timeline entry. An interrupted wave grades
every finished task and fails the wave.

## What Changed

- `observer.ts`: `childrenPending` treats a `blocked` subtask as
settled, so the parent rests and is graded. The timeline records
`task_child_blocked` with the subtask ids.
- `observer.ts`: `markUnfinished` closes an open task at interrupt as
unfinished (`timedOut`, last seen status) and records
`task_unfinished_at_interrupt`.
- `main.ts`: an interrupt now sets the harness error and grades the
wave, instead of throwing before the grade. The wave still fails.
- `wave-speed.ts`: `firstActivityMs` uses
`runMetrics().firstActivityAfterRunCreatedMs` from #20077, so there is
one definition of time from run creation.
- `wave-speed.test.ts`: the fixture starts `heartbeat.queue` when the
comment wait ends, as in real runs.

## Verification

- `npx vitest run` in `tests/restart-chaos`: 172 passed. Before this
change, the wave-speed test failed on master.
- `node scripts/typecheck-test-projects.mjs tests/restart-chaos`: clean.

## Risks

- A subtask that is `blocked` only for a short time and then resumes
would end the parent's watch after the 60-second grace. The grade then
shows a failure that a longer wait could avoid. M1 subtasks have no
blockers, so `blocked` means a stuck subtask.
- An interrupted wave grades tasks while its server is still up. If the
server is already down, artifact collection fails, and those tasks are
graded as failures.

## 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 14:20:57 -06:00
DottaandClaude Opus 5.5 c02fd8d427 docs(plans): salvage-then-retire design for kept restore-source and done-task warm sandboxes (#20087)
## Thinking Path

- Paperclip keeps some remote sandboxes after their run: warm ones for
reuse, and failed runs' stopped sandboxes as workspace-restore sources.
- In the warm Daytona chaos waves for #20048, the real leaks were
restore sources that nothing retires once a user Retry closes their
recovery actions. Separately, a done task's suspended warm sandbox is
only destroyed when its environment is deleted.
- Retiring them early needs a provider-I/O salvage step: compare against
the durable save, export anything unsaved to the issue, then destroy.
That spans recovery, storage, attachments and teardown. The coordinator
asked for a design note so it can be its own reviewed task instead of a
rushed patch.

## Linked Issues or Issue Description

Refs #20048, #20085, #20086

**What happened?**
Closed restore sources and done-task warm sandboxes stay suspended until
their environment is deleted, costing storage. No path compares them
with the last durable save or exports their unsaved files before
retirement.

**Steps to reproduce**
1. A run fails; its sandbox is kept as a `retain_on_failure` restore
source.
2. The user clicks Retry; a fresh run succeeds and the task is done.
3. The restore-source sandbox is never retired until the environment is
deleted.

**Expected behavior**
After a clean compare, or a confirmed export of anything unsaved to the
issue, the sandbox is destroyed. If salvage fails, it stays suspended
and is retried.

## What Changed

- `doc/plans/2026-11-08-restore-source-salvage-and-warm-retirement.md`:
a design for one owned kind (`environment_kept_sandbox_retirement`) on
the shared reconciler. It covers listing rules for both cases (24 h
default retention for done-task warm sandboxes), a three-stage salvage
state machine (compare, export, retire) with a provider-I/O step and
receipt table, failure handling that never destroys without proof, and
the test plan.

## Verification

Docs only; no code or tests changed.

## Risks

None at runtime. Additive documentation.

## 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 14:13:05 -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 c3c226d165 test(restart-chaos): governance (approval, budget hard stop) and upgrade mid-run scenarios (#20089)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - The restart chaos harness kills and restarts the control plane
during real agent tasks and grades every task
> - It covers run lifecycle, comments, delegation and long tools, but
not two areas that must also survive a restart: governance (approvals
and budget hard stops) and an upgrade in the middle of a run
> - An approval that disappears, runs twice or runs after a rejection,
or a budget pause that dispatches work, breaks governance. An upgrade
that cannot resume saved state breaks the upgrade-safe-saved-state rule
> - This pull request adds the harness support for both scenarios, using
only the paths a real board user and agent use
> - The benefit is that the next chaos waves can test these boundaries
and report failures with evidence

## Linked Issues or Issue Description

Refs #20084, #20067

**What happened?**
The restart chaos harness had no scenario for an approval-gated action
pending across a restart, for a budget hard stop crossed mid-run with a
restart, or for a server upgrade in the middle of a run. These
boundaries were untested.

**Expected behavior**
- **G1:** a pending approval survives K1, K2 or K4. Approving it after
the restart runs the gated action exactly once; rejecting it never runs
it.
- **H1:** a budget hard stop crossed mid-run pauses the company, nothing
dispatches while paused (also across a restart), and resuming continues
the work.
- **K14:** a wave started on an older build and upgraded mid-turn
resumes old-saved state on the new build with no Retry, no lost comments
and no stuck records.

**Steps to reproduce**
1. Run the harness commands in `tests/restart-chaos/README.md`
("Governance across restarts" and "Upgrade mid-run").
2. Each task is graded R1–R6 plus its oracle.

**Paperclip version or commit**
master at 4f7eee10c2.

## What Changed

- **G1 workload: approval across a restart.**
- The agent requests board approval through its `call_api` tool (`POST
/api/companies/{companyId}/approvals`, `request_board_approval`, linked
to its task), blocks, and ends its turn.
- A new `approval` trigger fires the fault once the observer sees the
approval pending.
- After the restart, with the server ready, the observer acts as the
board through `POST /api/approvals/:id/approve` or `/reject` (rejection
also cancels the task). The decision is fixed by the nonce.
- The oracle checks one request, still pending when decided after the
restart, the decision, and the gated subtask exactly once on approval
and never after rejection.
- R1 and R3 grade a rejected task against `cancelled`
(`expectedFinalStatus`).
- **H1 workload: budget hard stop across a restart.**
- Before launch the observer sets the company budget to observed spend
plus one cent through `PATCH /api/companies/:id/budgets`.
- A new `paused` trigger fires the fault once the company shows `paused`
/ `budget`.
- After the restart the pause must hold 30 s with the server ready. The
observer records runs that started while paused, then resolves the
incident with `raise_budget_and_resume`.
- The oracle checks the brief, the pause, no dispatch while paused, the
resume after the fault, and an active company at rest.
- H1 runs alone, at concurrency 1, and not with `--rc06-masked` (config
errors).
- **K14 fault: upgrade mid-run, with `--upgrade-from <older
checkout>`.**
  - The server starts from the older checkout.
- The first K14 stops it with SIGTERM and starts this checkout on the
same database, instance directory, port and secrets. The runner binary,
pinned Codex and source dependencies are prepared per checkout.
  - The receipt names both commits.
- K14 is local-only and needs `--upgrade-from` (and the reverse). It is
excluded from storm defaults. Preflight refuses an older checkout that
is not prepared.
- G1 and H1 are opt-in: they are not in the default workloads.
- README sections for both scenarios.

## Verification

- `pnpm exec vitest run --config tests/restart-chaos/vitest.config.ts`:
every new and changed test passes; 188 of 189 pass in total. The one
failure, `wave-speed.test.ts` "judges time to first agent activity…",
also fails on master: #20077 gave the local TTFT a budget after #20071's
test expected none. This PR does not touch `wave-speed` or the speed
budgets. The new `governance.test.ts` covers:
- the board decides only after the fault the pending approval armed,
with the server ready, for approve and reject;
  - a blocked task waiting on its approval is not counted as resting;
- G1 and H1 oracle pass and fail cases (duplicate request, action twice
or after rejection, decision or resume that crossed no restart, dispatch
while paused);
- H1 budget set, pause hold and incident resolve, against a fake board
API;
- trigger gating, opt-in workloads, H1 exclusivity, and K14 option
pairing.
- `node scripts/typecheck-test-projects.mjs tests/restart-chaos`:
passed.
- Not run yet: a live wave of G1, H1 or K14. Phase 3 holds the harness
slot, and the smoke runs are requested there. Their results will be
added here.

## Risks

- Test harness only; no product code changes.
- G1 relies on the agent following the instructions (request, block, act
only when approved). A task where the agent does not follow them fails
the oracle visibly.
- K14 seeds the company with this checkout's harness code while the
older server serves. This works for recent builds; a much older build
could reject a seed call.
- Live behavior is not proven until the smoke runs.

## 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>
canary/v2026.1108.0-canary.21
2026-11-08 13:40:39 -06:00
DottaandClaude Opus 5.5 fcdceaf5fb test(restart-chaos): grade a stopped retain-on-failure restore source as retained (#20086)
## Thinking Path

- The restart-chaos harness's Daytona sweep grades R6, sandbox leaks,
after every wave. It counts a sandbox as kept on purpose when its lease
says so: a retained lease, or a released reusable lease whose sandbox is
stopped for reuse.
- Paperclip also keeps a failed run's sandbox stopped as a
workspace-restore source (`retain_on_failure`, owned by restore
recovery). The sweep graded those as orphans, so the warm-reuse chaos
gate for #20048 counted intentional, recoverable retention as leaks.
- The coordinator's decision: grade it honestly. A stopped, owned,
recoverable restore source is retained; a running one, or one that
survives its environment's deletion (no lease left), is still a leak.

## Linked Issues or Issue Description

Refs #20048

**What happened?**
In Daytona warm wave w-20261108T170423-s9501, four "orphans" were
`retain_on_failure` leases: released, sandbox stopped, kept as failed
runs' workspace copies. The sweep counted them as R6 leaks, failing the
gate for intended retention.

**Steps to reproduce**
1. Have a released `retain_on_failure` lease whose Daytona sandbox is
stopped.
2. Run `reconcileSandboxes`: the sandbox is listed in `orphanSandboxes`.

**Expected behavior**
It is listed in `retainedLeases`. A running restore source, or a sandbox
with no lease, stays in `orphanSandboxes`.

## What Changed

- `tests/restart-chaos/daytona-sweep.ts`: `keptForReuse` also accepts a
released `retain_on_failure` lease whose sandbox is `stopped`; the doc
comment explains both kinds of kept sandbox.
- `tests/restart-chaos/daytona-sweep.test.ts`: a stopped restore source
is retained; a running one, or a sandbox with no lease, is still an
orphan.

## Verification

- `npx vitest run --root tests/restart-chaos daytona-sweep`: 14/14 pass.

## Risks

- **Hiding a leak.** Only stopped sandboxes behind a released restore
lease qualify; they are owned by restore recovery and, with #20085,
destroyed with their environment. Running sandboxes and lease-less
sandboxes still fail R6. This is harness-only, with no product change.

## 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>
canary/v2026.1108.0-canary.20
2026-11-08 12:32:45 -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 015d3d0a7c fix(environments): tear down retain-on-failure sandboxes when their environment is deleted (#20085)
## Thinking Path

- Remote sandboxes cost money while they exist, so every sandbox
Paperclip keeps must have an owner and an end.
- Two lease policies keep a sandbox after its run.
`reuse_by_environment` keeps a warm sandbox for the next turn.
`retain_on_failure` keeps a failed run's sandbox, stopped, as a
workspace-restore source.
- Environment deletion is the last chance to end both: with the
operator's consent it destroys the environment's kept sandboxes,
otherwise it refuses.
- It only looked at `reuse_by_environment`. A `retain_on_failure`
sandbox neither blocked the delete nor got destroyed, so it was orphaned
the moment its environment was deleted.

## Linked Issues or Issue Description

Refs #20048

**What happened?**
In Daytona warm wave w-20261108T170423-s9501, the harness deleted the
environment after grading. Three stopped sandboxes (4e20c8b3, abf0980b,
5e49c561) remained afterwards and had to be deleted by hand through the
Daytona API. All three belonged to `retain_on_failure` leases: failed
runs' sandboxes kept as workspace-restore sources.

**This leaks on master today, with per-turn sandboxes too.** The four
leases in that wave carried `workspaceRestoreRecovery` from
`legacy-workspace-restore-recovery.ts` (no `nativeSourceRetention`
marker). That writer turns any failed run's lease with a
workspace-restore failure into a `retain_on_failure` restore source,
whether the environment is warm or per-turn. Every such sandbox has been
surviving environment deletion and costing money until deleted by hand.

**Steps to reproduce**
1. A run in a sandbox environment fails, and its lease is released as a
`retain_on_failure` restore source (sandbox stopped, not destroyed).
2. Delete the environment with `destroyReusableSandboxLeases=true`.
3. The delete succeeds; the restore-source sandbox is never destroyed
and has no lease or environment left to find it by.

**Expected behavior**
The delete blast radius counts kept restore-source sandboxes like
reusable ones. Without consent, the delete is refused; with consent,
they are destroyed through the same claimed teardown before the
environment row is removed.

## What Changed

- `server/src/services/environments.ts`: `getDeleteBlastRadius` counts
leases with policy `reuse_by_environment` **or `retain_on_failure`**
(status `active`, `released`, `retained` or `failed`) as kept-sandbox
holders. The blocked reason is still `reusable_sandbox_lease`.
- `server/src/services/environment-runtime.ts`:
`destroyReusableSandboxLeasesForEnvironment` selects both policies. It
claims through `destroyClaimedSandboxLease` with `anyLeasePolicy` plus a
scope condition limited to those two policies, keeping its existing
guards: live-run skip, pending export, legacy shutdown protection, and
the claim compare-and-swap.
- `server/src/__tests__/environment-runtime.test.ts`: a released
`retain_on_failure` lease on a failed run now blocks the delete and is
destroyed by the consented teardown (`expired`, `environment_deleted`).
This fails on master.

## Verification

- `cd server && npx vitest run src/__tests__/environment-runtime.test.ts
src/__tests__/environment-service.test.ts
src/__tests__/environment-routes.test.ts`: 347/347 pass.
- The new test fails on master: the blast radius reports no kept
sandbox.

## Risks

- **A delete now refused that used to succeed.** An environment holding
restore-source sandboxes is refused until the operator consents to
destroying them. That is the intended behaviour; it was silently leaking
them before.
- **Losing restore files.** The consented delete destroys restore
sources, which is what the operator agreed to by deleting the
environment. Leases with a pending export or legacy shutdown protection
are still skipped and keep blocking.

## 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 12:32:38 -06:00
DottaandClaude Opus 5.5 a9ae1b69c3 fix(runner): let a finish through after a restart lost the provider turn (#20088)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - The Runner relays an agent's Paperclip tool calls and keeps them
across control-plane restarts
> - #20069 refuses a `paperclip_finish` or `paperclip_block` decided
before an earlier returned result reached the agent
> - The guard filters by turn id, but each committed event carries the
run's one identity turn id, so provider turns are not separated
> - When a restart loses a provider turn, a call of that turn gets its
result but never its provider completion
> - The guard then refuses every later finish of the run, so the run
exhausts its retries and the user must click Retry
> - This pull request makes a new provider turn end the pending calls of
the previous turn
> - The benefit is that an agent can finish after a restart that lost
its turn

## Linked Issues or Issue Description

Refs #20069

**What happened?**
A restart chaos storm (local, Codex, A1/C1, K2 drains for 30 minutes,
116 tasks) had one failure. Task t110 needed a user Retry. Its run was
drained twice. The first drain lost the provider turn while a
`read_agent_instructions` call was pending. After that, all four
`paperclip_finish` calls failed with `terminal_call_before_results` and
named `read_agent_instructions`. The run ended with
`native_session_retry_exhausted`.

**Steps to reproduce**
1. Start a Codex run that calls a Paperclip tool.
2. Drain the control plane while that call is pending, so the Runner
restores the session and reports `provider_turn_lost_on_restore`.
3. Let the agent continue in the new turn and call `paperclip_finish`.

**Expected behavior**
The finish is recorded. The lost call belongs to a turn that the agent
will not see again.

**Actual behavior**
The Runner refuses every finish with `terminal_call_before_results`. The
run fails and needs a user Retry.

## What Changed

- `unseenReturnedToolCalls` forgets the calls it tracked when a
`turn.started` event begins a new provider turn.
- A new test reproduces the t110 event order: a call in a lost turn,
then a new turn that reads, sees its result, and finishes.

## Verification

- `npx vitest run src/live/terminal-call-freshness.test.ts` in
`packages/paperclip-runner`: the new test fails before the change and
passes after it (7/7).
- `npx vitest run src/live/runnerd-codex-transport.test.ts -t terminal`:
10 passed.
- `tsc --noEmit -p packages/paperclip-runner`: clean.
- Evidence: the kept Runner control-plane state of t110 shows the call
`exec-0f3d1b90` (generation 1) with a `semantic_tool.result` command but
no `tool.execution.completed`, followed by `turn.failed
provider_turn_lost_on_restore` and new `turn.started` events.

## Risks

- The t03 case of #20069 stays covered: the stale block and the earlier
calls are in the same provider turn, with no `turn.started` between
them. The existing t03 tests still pass.
- If a driver emits `turn.started` inside one provider turn, the guard
can miss a stale call of that turn. No current driver does that.

## 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 12:29:38 -06:00
DottaandClaude Opus 5.5 4f7eee10c2 feat(recovery): let the board confirm an unrecorded owner stopped for every settling process kind (#20084)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Recovery releases in-progress records (leases, claims, intents) only
when it can prove their owner is gone
> - A record saved before its server process was fully recorded is
`unprovable`, and it is never released on its own
> - #20067 added a board-only action to confirm that such an owner
stopped, but only the environment run lease used it
> - Other settling kinds (for example the legacy controller lease, which
shows `missing_identity` rows in the Phase 2 reconciler data) stay stuck
with no way forward
> - This pull request opens the same confirmation to every settling kind
whose record names a partly recorded server process
> - The benefit is that an operator can release these stuck records
safely, and recovery settles them at once

## Linked Issues or Issue Description

Refs #20067, #20054

**What happened?**
The Phase 2 reconciler data shows `legacy_controller_lease` records that
stay `unprovable` with `missing_identity`: they were saved before
Paperclip stored the controller's PID space. Recovery never releases an
unprovable owner, and only the environment run lease offered the board's
"confirm the previous server stopped" action. These records, and records
of other settling kinds saved the same way, had no path forward.

Also, a board confirmation did not wake the reconciler. Unprovable
records are not watched, so the release waited for some unrelated pass.

**Expected behavior**
Recovery asks the board on the record's task. After the board confirms,
recovery releases the record through the kind's own compare-and-swap
settle, at once. A confirmation never releases a record that changed
since the board was asked.

**Steps to reproduce**
1. Have a legacy run whose `controller_process` was recorded without a
host hash (an older server).
2. Run the ownership reconciliation pass. The record is `unprovable`
(`missing_identity`) and no board action appears.

**Paperclip version or commit**
master at c55af26821.

## What Changed

- `ownership-registry.ts`: a new `ownerGoneAttestable` helper opts a
settling kind in. The kind asks the board (cause
`ownership_owner_unprovable`) only for a process-owned record that is
unprovable for a legacy reason and has a version. Opted in:
`legacy_controller_lease`, `environment_teardown_claim`,
`sandbox_creation_intent`, `workspace_runtime_control_operation`,
`native_workspace_finalize_attempt`, `native_finalizer_lease`,
`native_cleanup_lease`.
- `owner-gone-attestation.ts`:
- The request records the record version (`recordUpdatedAt`), and each
pass refreshes an open request to the current version.
- The board submits the version it was shown (`recordVersion`, a new
optional field in `confirmOwnerGoneSchema`). The confirmation is refused
with 409 unless that equals the request's current version and the locked
record's version.
- `recordVersionAttestations` reads back every resolved confirmation.
Any one that names the record's current version applies.
- `confirmOwnerGone` now wakes the ownership reconciler in its
transaction.
- Each opted-in kind has a version lock. For an `operator_attested`
proof, its settle runs in a transaction that locks the record row and
re-checks the confirmed version before the kind's own compare-and-swap.
- `ownership-invariant-report.ts`: in the periodic pass and in one-shot
settles, a matching confirmation turns a legacy `unprovable` verdict
into `gone` (`operator_attested`). A live or provable owner always wins.
The extra read runs only when a kind has such a record.
- `WorkspaceExportRecovery.tsx`: the board's confirmation names the
stuck record by kind (for example "This task's earlier run"), with a
generic fallback, and sends the version it showed.
- `doc/execution-semantics.md`:
- It describes the action, the version binding and which kinds are
offered.
- It updates the controller-lease section to match #20054: the holdings
list, and that the lease is off only on Railway deployments with an
exclusive volume.

## Verification

- `pnpm exec vitest run src/__tests__/owner-gone-attestation.test.ts`
(server): 10/10. The new legacy-controller cases fail without the
change:
  - the board is asked, and nothing is released before the confirmation;
- the confirmation wakes the reconciler, and the next pass settles the
record as `operator_attested`;
- a record that changed after the confirmation is not released, and a
fresh request is raised;
- a record of these kinds with no owner stamp is not offered, because
its settle could never release it;
- a confirmation for a version the record no longer has is refused, and
the refreshed request then applies;
- a write between the reconciler's listing and its settle stops the
release inside the settle's transaction.
- The 10 server ownership suites (registry, report, owner proof,
controller lease, legacy controller, teardown, finalize, token leases):
332/332.
- `pnpm exec vitest run
src/components/WorkspaceExportRecovery.control.test.tsx` (ui): 48/48.
- `pnpm check:token-gates`: all gates clean.
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck` in `server` and
`ui`: passed.

## Risks

- A wrong release would be serious. The safeguards:
- The confirmation applies only while the record's last-write time
equals the one the board was asked about, and only while the prover
still finds the recorded process unprovable for a legacy reason.
- Each kind's settle still compare-and-swaps on the exact recorded
process.
- A record of these kinds with no owner stamp at all is not offered.
Those settles cannot release it, so it keeps its existing recovery path.
- Kinds that are unowned by design (queued pending cleanup, accounting
debt) are not offered.

## 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 12:16:07 -06:00
DottaandClaude Opus 5.5 a65626a2a2 test(chaos): fail waves on a needed Retry and on speed regressions (outage removed); add M1 multi-agent workload (#20071)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - The restart chaos harness (tests/restart-chaos) kills and restarts
the control plane during real agent tasks, and grades every task on
reliability rules R1–R6 plus a task oracle
> - Dotta's bar for today's campaign: restarts must continue on their
own (Retry is only a fallback), the system must stay fast (speed budgets
in `native-speed-budgets.ts`), and realistic scenarios must be covered
> - The harness graded a task that needed a user Retry as a pass, graded
speed only in crash-point mode, and counted a K4 controller hold as slow
TTFT. It also had no multi-agent scenario
> - This pull request closes those four gaps
> - The benefit is that every chaos wave now fails on a needed Retry and
on a real speed regression, but not on the fault's own outage

## Linked Issues or Issue Description

Refs #19831 (durable ownership plan) and the restart chaos plan
(`doc/plans/2026-11-06-control-plane-restart-chaos.md`). Used by today's
campaign waves:
- w-20261108T134237-s9401 re-graded to 104/107 under the Retry rule;
- w-20261108T153612-s9401: 100/101, with a Speed section showing 6
breaches after outage removal.

## What Changed

- **R3 Retry rule** (`grader.ts`): a task that needed a Retry fails R3
as `retry_needed (<failed runs' error codes>)`, and a second click fails
as `retry_needed_<n>_clicks`. The harness still clicks Retry so the task
can finish and be graded.
- **Per-wave speed grade** (new `wave-speed.ts`, wired in `main.ts`):
- It reads every task run's run log through the API and reports TTFT
(from run created) and agent boot p50/p95 per adapter and start kind,
restart recovery (ready → the run's next provider event), and single-run
`run.performance.budget_exceeded` events, against the local budgets.
  - A breach fails the wave.
- Output goes to `speed.json` and a Speed section in `SUMMARY.md`.
Remote environments report numbers with no budget.
- **Outage removal**: each performance span is shortened by its overlap
with fault outage windows (fault start to replacement server ready)
before it is judged. The summary reports how many spans and how much
time were removed.
- **M1 workload** (multi-agent delegation):
- The parent task creates two subtasks, part 1 delegated to the other
Chaos Lab agent.
- Each subtask saves a marked document, and the parent writes a summary
of both before it completes.
- The observer collects the subtasks and their documents, and the oracle
checks the parent links, assignees, statuses and markers.

## Verification

- `pnpm exec vitest run --config tests/restart-chaos/vitest.config.ts`:
14 files, 163 tests pass. New tests cover the M1 grade, the R3 Retry
rule (one click and two clicks), the wave speed grade (budget judgement,
restart recovery, remote no-budget, fault→run attribution) and outage
removal.
- `node scripts/typecheck-test-projects.mjs tests/restart-chaos` passes.
- Real waves:
  - The R3 rule re-graded w-20261108T134237-s9401 to 104/107.
- w-20261108T153612-s9401 produced the Speed section: 923 spans
adjusted, 2,452 s of outage removed, 6 breaches.
- M1 has not yet run in a live wave. It's next in the campaign rotation.

## Risks

- Waves that passed before can now fail: on a needed Retry, or on a
speed breach. That is the intended bar.
- Speed is judged at wave concurrency on a shared host, which is noisier
than the idle baseline the budgets came from. Breaches are reported per
row, so a reviewer can see the margin.

## 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>
canary/v2026.1108.0-canary.19
2026-11-08 11:27:39 -06:00
DottaandClaude Opus 5.5 c55af26821 fix(runner): treat a replayed start of a turn lost on restore as history (t48) (#20074)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A native Codex run must survive a control-plane restart and continue
its work
> - #20057 made recovery adopt an in-flight turn, or start a new turn
when the restored runner reports the old turn lost
> - One case was not covered. A graceful drain can detach the controller
after the runner accepted `turn.start` but before the provider started
the turn
> - The runner then records the provider's `turn.started` while no
controller is attached. After a restart it replays that start, and the
Codex session rejects it as an unexpected turn
> - This pull request treats that replayed start as history from the
earlier generation
> - The benefit is that the run starts its continuation turn instead of
stopping with `native_event_replay_conflict`

## Linked Issues or Issue Description

Refs #20057

**What happened?**
A restart chaos wave ended with one failed task (t48, Codex). A graceful
SIGTERM suspended the controller 300 ms after the runner accepted
`turn.start`. The provider's `turn.started` came after the controller
detached. Recovery classified the run as `resume_dead_runner`. The
restored runner reported the turn as `provider_turn_lost_on_restore`,
which is correct. But it also replayed the undelivered `turn.started`.
The Codex session failed with "Provider started an unexpected turn."
(`turn_binding_mismatch`), and recovery stopped with
`native_event_replay_conflict`.

**Expected behavior**
Recovery starts a new continuation turn. The replayed start of the lost
turn is recorded as history, and the run completes.

**Steps to reproduce**
1. Start a Codex native run.
2. Detach the controller gracefully after the runner accepts
`turn.start` and before the provider emits `turn/started`.
3. Let the runner record `turn.started` while it is unattached, then
kill the runner and the provider.
4. Restore the run. Before this change, the session fails with
`turn_binding_mismatch`.

**Paperclip version or commit**
master at a9cf4ee731 (the wave ran on 66a2cbab98).

## What Changed

- `codex-app-server-driver-impl.ts`: recovery identifies the turn that
this run's latest `turn.start` had the runner accept, when recovery did
not adopt it and provider history does not show it live. Recovery passes
it to the session as `lostAcceptedTurnId`.
- `codex-session-state.ts`: the session keeps `lostAcceptedTurnId` as an
unconfirmed lost turn. The stale-event rule treats its replayed start
and items as history.
- `codex-session-notifications.ts`: `turn/started` applies the
stale-event rule to earlier-generation and unconfirmed lost turns. The
runner's restart-loss terminal confirms the lost turn. Any other
terminal, or a semantic result, from that turn fails closed, so a real
outcome is never dropped. A start for a turn that this generation
settled, or for a turn the session never saw, still fails closed.
- `runnerd-restart-continuation.test.ts`: a new connected test with the
real runner and the fake Codex server reproduces the t48 shape. A new
fake option, `--turn-started-gate`, holds the provider's start until the
test detaches the controller, so the test does not depend on timing.
- `codex-app-server-driver.terminal-replay.test.ts`: driver tests for
the replayed start (history), and for an ordinary failure or a result
from the lost turn (fail closed).

## Verification

- Red: before the fix, the new test failed with
`NativeProviderTerminalFailure: Provider started an unexpected turn.` at
`codex-harness-session.ts:211`. This is the same error and stack as the
chaos run.
- Green: `npx vitest run src/drivers/codex
src/live/runnerd-restart-continuation.test.ts` (in
`packages/paperclip-runner`) passed 392 of 392.
- The wider Codex, restart and recovery test files (45 files, 1153
tests) passed on the final revision. The two fail-closed driver tests
fail on the first revision, where the lost turn's outcome was dropped as
history. The one failure in an earlier run ("still rejects history for a
turn that became terminal in the live session") showed that the first
version was too broad. The rule now applies only to earlier-generation
turns, and that test passes.
- `PAPERCLIP_TYPECHECK_LOW_MEMORY=1 pnpm typecheck` in
`packages/paperclip-runner` passed.

## Risks

- Low risk. The change only applies after a restore, to a turn that the
runner accepted for this run's latest `turn.start`, and only when
recovery did not adopt that turn and provider history does not show it
in progress.
- A turn that the session never saw still fails closed. A re-start of a
turn this generation settled still fails closed. A real failure or a
result from the lost turn fails closed instead of being dropped.

## 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 11:14:24 -06:00
DottaandClaude Opus 5.5 e8a3f1f6f2 feat(recovery): prove a replaced container's records gone through a fenced controller epoch (#20054)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - After a restart, the control plane settles in-progress records
(leases, claims, intents) only once it proves their owner process is
gone
> - The proof compares host and PID space, so a stamp from a replaced
container or a rebooted machine stays unprovable forever, and its
records never settle
> - Self-hosted users on Docker, Kubernetes and Fly hit this on every
redeploy; a Railway deployment with an exclusive volume is covered by
`deployment_replaced` (#20026)
> - This pull request adds a fenced controller epoch: each boot holds a
database lease, and an expired boot is fenced so its records can be
proven gone
> - The benefit is that work stranded by a replaced container is
recovered, without keeping an idle database awake

## Linked Issues or Issue Description

Follow-up to #20026 and the Phase 2 durable-ownership data. Related:
#19965 (owner stamps), #19883 (process space). No duplicate PR was
found.

**What happened?**

A record stamped by a server process in another container reports
`different_process_space`. A dead PID elsewhere is never proof, so the
record stays `unprovable` and is never settled. Every redeploy of a
self-hosted container leaves such records behind.

**Expected behavior**

A record owned by a server boot that was replaced (stopped cleanly, or
lost its lease and was fenced) is proven gone and settled exactly once.
A live boot's records stay with it. An idle server issues no recurring
queries.

**Steps to reproduce**

1. Run Paperclip in a container and start work, so an environment lease
is stamped by that boot.
2. Replace the container. The new container has a new PID namespace.
3. The ownership reconciler reports `different_process_space`
(unprovable) for the old lease, forever.

**Paperclip version or commit**

`master` before this PR.

## What Changed

- New `controller_instances` table (migration 0449): boot id, epoch
(bigserial), process space, pid, a lease on the database clock,
`fenced_at` / `fenced_by_epoch`, `stopped_at`.
- `controller-instance-lease.ts`, registered with the shared
delivery-work coordinator (`controller-instance-lease` queue, runs
during drain):
- **Holds work → renews; idle → silent.** One upsert creates the row on
first use and extends the lease only if the boot holds work: a stamp
within the last 90 s, or a stamp whose ownership write may still be
pending (held until the server's tracked work settles, capped at 10
minutes; a renewal that sees some other held record does not clear it,
so a slow ownership write cannot be outlived), or an in-progress record
held by its boot id. Those records are active environment leases,
in-flight cleanup claims, sandbox creation intents, workspace finalize
attempts, agent lifecycle steps, native finalizer and cleanup leases
(`lease_holder` bound to the token), open native coordinator claims, and
running legacy runs. Renewal runs every 30 s while the boot holds work.
When it finds none, the lease lapses and the worker sleeps until the
next stamp (`onControllerStamp`).
- **No idle trailing statements.** When the server's last tracked work
settles, the worker re-checks holdings at once, at most every 5 s (the
rate limit also absorbs the worker's own run). So the last check happens
with the work, not 30 s later.
- **Quiesce, don't crash.** Each renewal has a 10 s bound. A failed or
timed-out renewal applies an internal task drain, so no new work is
dispatched. A recovered renewal resumes. The boot exits only after 60 s
of failure (counted from the first failed attempt's start) while it
still holds work, or at once when it finds itself fenced.
- **Fence on demand, by a newer epoch.** For a stamp from another host
or PID space, the prover reads that boot's row:
    - `stopped` or `fenced`: gone.
    - live lease: alive.
- otherwise, the boot's last sign of life is the later of its lease
expiry and the record's last write plus the TTL. Within 30 s of that,
the owner stays `alive` (`controller_lease_grace`), so the settle watch
keeps rechecking. After that, the prover fences the boot, but only with
a lease row of its own (created on demand) and only an older epoch.
  - A graceful shutdown records `stopped_at`.
- A reconciliation pass that settles nothing (`record: false` or
`settle: false`) never fences and never creates the boot's row.
- `owner-proof.ts`: these proofs apply only to server-held records. A
stamp with a recorded process group stays unprovable, because agent
processes can outlive their server. The reconciler passes each record's
`updatedAt` to the proof.
- `task-admission.ts`:
- the quiesce drain never replaces an operator's drain, and has no idle
owner, so HTTP stays open;
- a `subscribeIdleWorkSettled` hook fires when the last tracked work
finishes.
- Off on a Railway deployment with an exclusive volume (it has its own
replacement proof). `PAPERCLIP_CONTROLLER_INSTANCE_LEASE=on|off`
overrides this. A stateless Railway service keeps the lease. A server
without its own lease row never fences.
- `maintenance-server-routes.test.ts`: in the post-run quiet window, the
lease may check once more that the run's records were released. The test
now excludes those statements, then asserts that the lease issues
nothing in a further window.
- Docs: `doc/execution-semantics.md`; the Phase 2 data doc records the
two known gaps.

## Verification

- `controller-instance-lease.test.ts` (15 cases):
- a replaced container with all Railway variables empty is fenced and
settled exactly once over two passes;
  - a live lease is alive;
- an owner in grace, and work written after an idle lapse, stay alive
and watched;
  - an older epoch never fences a newer one;
- no fencing without its own lease row (off or unregistered), and an
idle prover creates its row on demand;
  - a stopped boot is gone;
  - process-group stamps stay unprovable;
- idle issues zero statements, and one upsert renews only while records
are held;
  - **a 45 s outage:** quiesced, no exit, resumes;
- **a renewal that never answers:** bounded, and the boot exits on time;
- **a 70 s outage:** exits at 60–65 s, and the successor recovers the
work exactly once;
  - fenced: stops;
  - the settle re-check;
- graceful stop; off on a volume-exclusive Railway deployment, on for a
stateless one, and the on/off override;
  - a running legacy run keeps the lease live.
- Red, with the proof's instance check removed: the replaced-container,
live, stopped and successor cases fail.
- Wider: task-drain, idle-sleep, idle-local-work, owner-proof and
ownership suites, plus the maintenance quiet-window tests. Server
low-memory typecheck is clean.

## Risks

- **Clock skew.** The proof compares a record's `updatedAt` (often the
writer's clock) with the lease (database clock). The 30 s grace absorbs
ordinary skew.
- **A new exit path exists.** A server whose database is unreachable for
more than 60 s while it holds work now exits, after first quiescing.
This is the intended safety backstop.
- **Bounded trailing activity.** A lease that holds work issues one
statement every 30 s, plus at most one check when its work settles. An
idle server issues none.
- **Boots from before this release** have no row, and their records stay
unprovable. The board "mark owner gone" action for those follows in a
separate PR.

## Model Used

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

## 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 11:06:32 -06:00
DottaandClaude Opus 5.5 0a64c9b4ab fix(recovery): treat a warm sandbox as abandoned only on positive evidence its task moved (#20070)
## Thinking Path

- #20065 made idle warm sandboxes owned records on the shared
retained-orphan kind. A warm sandbox no turn can resume is stopped if
running, then destroyed.
- One branch of that predicate decides that a task "moved" off a
workspace. As merged, it was true whenever no task was bound to the
lease's workspace. That includes a task whose binding is null: finished,
or between bindings.
- A null binding is not proof of a move. The warm sandbox may still be
resumable, and for a remote workspace it can hold the files. Phase 2's
review flagged this as blocking, so this follow-up requires positive
evidence.

## Linked Issues or Issue Description

Refs #20048, follow-up to #20065

**What happened?**
`taskMovedToAnotherWorkspace()` listed a warm lease as abandoned when
its task had no bound workspace. The pending-export check was then the
only thing preventing the destroy of a sandbox that could still be
resumed.

**Steps to reproduce**
1. Create a warm (`reuse_by_environment`) lease, released with a
confirmed stop, bound to workspace W.
2. Clear the task's `execution_workspace_id` (task finished, or between
bindings).
3. Run an ownership reconciliation pass: on master the lease is settled
and queued for destruction.

**Expected behavior**
Only positive evidence counts as a move: the lease's own task is bound
to a different, non-null workspace, and no task is bound to W. An
unbound task's warm sandbox is kept; a done or cancelled task's sandbox
goes through the existing retention paths.

## What Changed

- `server/src/services/environment-retained-orphan-settlement.ts`:
- `taskMovedToAnotherWorkspace()` now requires that the lease's own task
is bound to a non-null workspace different from the lease's, and that no
task in the company is bound to the lease's workspace.
- `newestRowForSandbox()` breaks `created_at` ties by id, so two rows
written in the same millisecond can't both count as newest.
- `server/src/__tests__/environment-retained-orphan-sandbox.test.ts`,
two keep cases:
- the task has no bound workspace, for both a released and a retained
warm lease;
  - two rows share the newest `created_at`.

## Verification

- `cd server && npx vitest run
src/__tests__/environment-retained-orphan-sandbox.test.ts`: 32/32 pass.
- With master's settlement file, the null-binding case fails, because
the lease is settled. The tie case also passes on master, since the
settle's existing shared-resource hold protects it; it stays as a
regression test for the listing.
- The full chain (retained, stop confirmed, listed, handed to
destruction) is covered in one test from #20065.

## Risks

- **Fewer sandboxes cleaned.** A warm sandbox whose task finished
unbound now waits for the existing retention paths instead of this
branch. That is the conservative direction, so files are never lost.
- **Scope.** No change to the holds or the settle contract.

## 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 10:56:32 -06:00
DottaandClaude Opus 5.5 f679cf81dc fix(runner): refuse a finish or block decided before earlier results reached the agent (#20069)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Restarts must be invisible to a task: an agent that was working
keeps working after the control plane comes back
> - Restart chaos t03 (Daytona warm wave, K4 holds) ended a task as
blocked even though its document was saved
> - The cause is in how a terminal decision (paperclip_block or
paperclip_finish) is handled after a long controller outage, not in how
the Runner journals tool calls
> - This pull request refuses a terminal call that the agent made before
it had seen results that already returned, so the agent continues with
those results
> - The benefit is that a controller outage no longer turns into a false
"blocked" task

## Linked Issues or Issue Description

Restart chaos t03, wave `w-20261108T142906-s9501` (Daytona, codex, A1,
three back-to-back K4 holds of 136 s, 252 s and 152 s). Refs #19831
(durable ownership plan).

**What happened**

The kept instance's run log shows the order of events:
1. The turn is accepted at 14:29:57. The runner then delivers nothing to
the controller until 14:39:27. The holds keep the controller down, and
the Runner keeps Codex's `item/tool/call` requests until it is
reattached.
2. During that outage Codex keeps running. Its `write_document` call
stays pending. The model is sampled again about once a minute and says
"The save request is also waiting on Paperclip". It then calls
`paperclip_block`, with the reason `tool_unavailable`.
3. After the reattach the Runner delivers the backlog in order.
`write_document` runs and returns (the document is created: sourceSeq
152). Then the stale block arrives (sourceSeq 247) before Codex has
acknowledged the write result: there is no `tool.execution.completed`
for it before the block. The task ends blocked.

**Codex behavior, checked directly** against the pinned Codex 0.160
app-server. A local probe sent one dynamic tool call and left it
unanswered:
- Codex does not time out. It re-samples the model at about 60 s and 127
s ("The save call is still waiting to return").
- A reply sent 130 s later is accepted (`durationMs` 130003), and the
model finishes ("DONE").

So the reply is not lost. The agent's terminal decision was made without
it.

**Expected behavior**
- A terminal call decided while earlier Paperclip results were still
unseen is refused with a retryable error.
- The agent continues with those results. In t03 it would see that the
document was saved, and finish.

## What Changed

- `packages/paperclip-runner/src/live/terminal-call-freshness.ts`:
`unseenReturnedToolCalls` reads the turn's committed run events up to
the terminal call. It returns each dynamic call that has a returned
`tool_result` but no provider `tool.execution.completed`.
`staleTerminalCallResult` builds the retryable
`terminal_call_before_results` error, which names those calls.
- `runnerd-codex-transport.ts` `#handleSemanticToolInput`: when such
calls exist, `paperclip_finish` and `paperclip_block` get that error
instead of being dispatched. The recovery path after a restart uses the
same handler. A long-running call with no result yet does not count.
- Crash point `runner.semantic_tool.after_input_before_dispatch`, just
before the controller dispatches a dynamic tool call. A crash-point hold
(`--hold-ms`, `--crash-point-hold-ms`; a K4-style receipt) keeps the
controller down after the self-kill. Together they reproduce t03 on
Daytona.

## Verification

- Red/green: `cd packages/paperclip-runner && npx vitest run
src/live/runnerd-codex-transport.test.ts -t "refuses a terminal call
decided"`.
- The case `seen: false` failed on master: the handler was called and
the stale block was dispatched. It passes with the fix.
- The case `seen: true` (the agent saw the result first) dispatches
normally, both before and after.
- `npx vitest run src/live/runnerd-codex-transport.test.ts`: 289 passed.
`src/live/terminal-call-freshness.test.ts`: 5 passed.
- `npx tsc --noEmit -p packages/paperclip-runner` passes, and `node
scripts/typecheck-test-projects.mjs tests/restart-chaos` passes.
- Shared registry: 15 passed. Call-site test: 3 passed. Chaos runner
tests: 12 passed.
- Codex probe (local, about 2.5 min per run): reproduced the "still
waiting" re-sampling and the accepted late reply described above.
- Not yet run: the Daytona crash-point repro with a hold. It needs the
shared harness slot, and I'll add the result here. The fix is controller
TypeScript, which is not an input of the Daytona image, so the current
image still matches.

## Risks

- A refused terminal call costs the agent one more turn step. It applies
only when a result returned that the agent had not seen, which in
practice happens only after a controller outage.
- The check reads committed run events. If the store evicted the earlier
call's events, it finds nothing and keeps today's behavior.
- Upgrade-safe run state: no persisted shape changes. The check reads
events the Runner already commits. A run saved by the previous release
resumes with the same history and the same answer.
- ACPX and other providers emit no dynamic `tool.execution.*` events, so
the check is a no-op for them.

## 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>
canary/v2026.1108.0-canary.18
2026-11-08 10:43:21 -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
DottaandClaude Opus 5.5 3448c7f9ba fix(recovery): own abandoned warm sandboxes on the retained-orphan path (#20065)
## Thinking Path

- Paperclip runs agent tasks in remote sandboxes (Daytona). With a warm
lifecycle, a sandbox outlives its turn so the next turn on the same
workspace resumes it instead of provisioning and uploading again.
- #20048 makes warm the default on remote sandboxes. Its merge
condition: an idle warm sandbox must be an owned record, adopted by its
successor or destroyed or suspended once its owner is proven gone, with
zero orphans in a Daytona chaos wave.
- That wave (warm environment, K1/K2/K4 faults) left sandboxes alive
behind dead lease rows. Reading the wave's database shows three
warm-specific shapes that nothing ever tears down:
1. **A Retry moved the task to a new workspace.**
`retainedIssueWorkspaceForRetry` reuses only local leases, so a remote
task always gets a fresh workspace. Reuse matches only the exact
workspace, so the old sandbox is unreachable: `released` and stopped
(wave t05), or still `retained` and running.
2. **A failed warm lease.** The plugin stopped the sandbox for reuse,
but reuse never resumes a `failed` row (wave t12).
3. **A warm sandbox kept running (`retained`).** Its idle timer lived
only in the process that kept it. If that task moves on, nothing stops
the sandbox, even after a restart.
- The shared ownership path already has a kind for exactly this
lifecycle: `environment_retained_orphan_sandbox` destroys a stopped,
retained sandbox once nothing references it, but it skipped warm leases
on purpose. This PR extends that kind instead of adding a new sweep.

## Linked Issues or Issue Description

Refs #20048

**What happened?**
In Daytona warm wave w-20261108T142906-s9501:
- t05: run 8758207a's sandbox was resumed by c99b3a2e and released
stopped in workspace 35a678f0. The Retry kept a fresh workspace
(8ac860c3) and provisioned a new sandbox, and the old one stayed
forever.
- t12: run f2bf2f05's lease on sandbox 6d4c91fb was released as `failed`
with the sandbox stopped, and the next run on the same workspace
provisioned a new one.
Both sandboxes were still alive when the wave ended.

**Steps to reproduce**
1. Use a sandbox environment with warm reuse (`reuseLease: true`).
2. Complete a turn so the warm lease is kept, retained or released and
stopped.
3. Make the next run fail so the Retry keeps a fresh workspace (always
the case for a remote task), or so the lease is released as `failed`.
4. The next run provisions a new sandbox; the old one is never resumed
or destroyed.

**Expected behavior**
A warm sandbox that no turn can resume is an owned record. Once its
owning run is terminal and nothing references it, the ownership
reconciler stops it if it is still running, then destroys it. A sandbox
its task can still resume on the same workspace is left for reuse.

## What Changed

- `server/src/services/environment-retained-orphan-settlement.ts`: the
listing (`retainedOrphanSandboxCondition`) now has two warm branches,
each on the newest lease row for its sandbox:
- `abandonedWarmSandboxCondition`: a `reuse_by_environment` lease with a
confirmed `stopped` receipt for this lease and run, either `failed`, or
`released` while the task's bound workspace differs from the lease's.
The settle hands it to the cleanup sweep through the existing
stopped-cleanup contract, so the old run's successors are never blocked
on the destroy.
- `supersededRunningWarmSandboxCondition`: a `retained` (still running)
warm lease whose task moved workspace. The settle queues a stop-only
intent. When the provider confirms the stop, the row becomes `released`
with a receipt, and the first branch destroys it on a later pass.
- The settle re-checks the same predicate under the row lock. Every
existing hold still applies: the run still active, open runs or recovery
actions on the issue, pending exports, stop or restore intents, or
another live lease on the same sandbox.
- `server/src/services/sandbox-stop-and-retain.ts`: new
`prepareSupersededWarmSandboxStop`, which prepares the existing
stop-only intent from `retained`. The intent carries the recovery
marker, so the sweep dispatches its first attempt at once.
- `server/src/__tests__/environment-retained-orphan-sandbox.test.ts`,
new tests:
  - a superseded released lease is destroyed;
  - a failed warm lease is destroyed;
  - a running superseded lease is stopped, then destroyed;
- keep cases: the task can still resume it (released, and retained after
a restart), no stop receipt, a newer row on the same sandbox, a run in
flight on the task.
  The positive tests fail on master and pass with this change.

**Previous-release state:** the conditions read existing columns only
(status, lease policy, workspace binding, stop receipt). Rows the
previous release saved are judged as-is. The tests build them in exactly
the shape that release writes (no new marker), so old-saved state is
handled by the new code without migration. Rows without a confirmed stop
are never listed.

## Verification

- `cd server && npx vitest run
src/__tests__/environment-retained-orphan-sandbox.test.ts`: 29/29 pass.
With the two service files reverted to master, the 3 positive tests fail
and the other 26 pass.
- Neighbouring suites `environment-run-lease-ownership`,
`heartbeat-pending-cleanup-sweep`, `ownership-reconciliation-report`,
`heartbeat-orphaned-active-lease-sweep`,
`environment-pending-cleanup-queue-owner` and
`retained-native-session-cleanup-work`: 150/150 pass.
- The wave's lease rows were read from the run's kept database copy to
confirm the shapes above.
- Not yet covered: the same Daytona warm wave, rerun with this fix.
#20048 merges only at ≥11/12 with zero orphans.

## Risks

- **Destroying a sandbox someone can still use.** Only the newest row
for a sandbox is judged. `released` and `retained` rows qualify only
when the task's bound workspace differs from the lease's, which is the
exact rule reuse matches on. All existing holds still apply, and a stop
must be provider-confirmed before any destroy.
- **Unsaved work.** Pending native exports and stop or restore intents
hold the sandbox. A stopped sandbox is destroyed only after its owning
run is terminal and nothing on the task is still running.
- **Blocking a successor.** The destroy uses the stopped-cleanup
contract (`workspaceRecoveryCleanup` with the stop receipt), which
`hasPendingRunCleanup` treats as resource cleanup. This is covered by a
test.
- **Out of scope.** A `retain_on_failure` lease kept for workspace
restore (wave t12, a095e0b5) stays with restore recovery, which owns its
own cleanup.

## 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 09:57:08 -06:00
DottaandClaude Opus 5.5 0746d1203d feat(recovery): let the board confirm that an unrecorded owner stopped (#20067)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - After a restart, recovery releases an in-progress record only once
its owner is proven gone, never by age
> - A run lease saved before owners were stamped has no owner Paperclip
can judge on an ephemeral (multi-host) server, so it stays stuck and
holds its run's sandbox forever
> - Only a person can tell that the previous server stopped (for
example, its container was replaced)
> - This pull request asks the board on the stuck task and lets an owner
confirm the stop, with an activity-log entry; recovery then releases the
record on its normal path
> - The benefit is that legacy stuck records have a way out that never
guesses

## Linked Issues or Issue Description

Follow-up to the Phase 2 durable-ownership work: #20054 (controller
instance lease) and #19883 (process-space recording). It generalizes the
existing "confirm the previous server stopped" action for native
controllers (`native_controller_host_unverified`). No duplicate PR was
found.

**What happened?**

On an ephemeral server, an active run lease of a finished run that was
saved before holders were stamped has no owner stamp. The ownership
reconciler reports it `unprovable (no_owner_stamp)` and never settles
it. No operator action exists, so the lease and its sandbox stay
reserved.

**Expected behavior**

The task shows the stuck resource, and a board owner can confirm that
the previous server stopped. Recovery then releases the lease. Agents
and operators without the owner-stop permission cannot.

**Steps to reproduce**

1. Run with `PAPERCLIP_EPHEMERAL_SERVER=true`.
2. Have an active environment lease with no `leaseController` stamp,
whose run is terminal.
3. Run an ownership reconciliation pass. The lease stays `unprovable`
with no action on the task.

**Paperclip version or commit**

`master` before this PR.

## What Changed

- `packages/shared`: `confirmOwnerGoneSchema` (`actionId`, `recordId`,
`stopEvidence` of 20 to 12000 characters).
- `recovery/owner-gone-attestation.ts`:
- `requestOwnerGoneConfirmation(kind)` is an `onUnprovable` hook. For a
legacy unprovable owner (`no_owner_stamp`, `process_space_unrecorded`,
`missing_identity`) on a record that has a task, it opens one idempotent
board recovery action on that task (cause `ownership_owner_unprovable`).
- `confirmOwnerGone(...)` verifies the exact action and record. It asks
the kind to write the attestation (compare-and-swap), resolves the
action, and writes an `issue.ownership_owner_gone_confirmed`
activity-log entry with the actor and the stated evidence.
- Ownership registry:
  - `OwnableKind.attestOwnerGone` is a new optional hook.
- `environment_run_lease_active` implements it: only an unstamped active
lease of a terminal run, with the notification for the cleanup path.
- The lease's owner then reads `operator_attested`, which proves gone,
so the existing settle releases it. A holder stamped since the board was
asked owns the lease, and its stamp decides.
- Route: `POST /api/issues/<built-in function
id>/recovery-actions/confirm-owner-gone`. It uses `assertBoard` plus
`runtime:confirm_owner_stop`, the same board-only permission as
confirm-controller-stopped. It is registered in OpenAPI.
- UI: `issuesApi.confirmOwnerGone`. The task's recovery card shows the
existing `PreviousServerStopConfirmation` for this cause, with
resource-specific wording; owners confirm and operators see the wait.
`isPreviousServerStopCause` includes the cause, so the generic card does
not offer other resolutions.

## Verification

- `owner-gone-attestation.test.ts`:
  - the stuck lease opens one board action on the task;
- confirmation resolves the action, writes the activity log, and the
next pass settles the lease (`operator_attested`) exactly once;
  - a mismatched record is refused with 409;
- a holder stamped after the ask is refused and the lease stays active;
  - no action for a judgeable owner or for a record with no task.
- Red, with the `onUnprovable` hook removed: 2 of 3 fail.
- UI: `WorkspaceExportRecovery.control.test.tsx` checks that the owner
confirms with the right payload and that an operator sees the wait
without the control (47/47).
- Server suites: openapi-routes, ownership and recovery suites, plus the
existing native-controller-host recovery. Low-memory server typecheck is
clean; `check:token-gates` is clean.

## Risks

- The board can attest a server stopped that is in fact running. The
action and the UI copy ask for the evidence, and the activity log
records who attested what. This is the same trust model as
confirm-controller-stopped.
- Only run leases opt in so far. Records without a task (login/probe
leases) keep the legacy idle sweep.

## Model Used

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

## 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>
canary/v2026.1108.0-canary.17
2026-11-08 09:46:36 -06:00
DottaandClaude Opus 5.5 66a2cbab98 fix(runner): adopt the in-flight Codex turn after a restart lands just after turn.start (#20057)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A native Codex run survives a server restart by resuming its durable
provider session and adopting the turn that was in flight
> - The adoption rule (RC-59) only adopts a turn named by the latest
`turn.start` command's accepted result
> - Two gaps made it fail. A restart just after `turn.start` leaves that
command `execution_indeterminate` (the runner died after journaling it).
Separately, the rule demanded that Codex echo the requested turn id,
which it never does.
> - The restored session then rejected Codex's own in-flight turn as
unexpected, and the user's Retry failed on the first click
> - This pull request adopts exactly the turn the runner reconciled for
that ambiguous start, and accepts Codex's own turn ids
> - The benefit is that a restart landing right after a turn starts no
longer costs the user a second Retry

## Linked Issues or Issue Description

Found by the restart-chaos campaign: wave `w-20261108T134237-s9401`,
task t77 (Codex C1), Retry run `5358f1cb`. Related: #19852 (fast
follow-up turns), RC-59 adoption. No duplicate PR was found.

**What happened?**

The Retry run submitted its first turn at 14:05:25.171. A K2 SIGTERM
followed at .690 (graceful drain, then `resume_dead_runner`).
- The runner had journaled the `turn.start` and then died, so on restore
it settled the command as `failed / execution_indeterminate`.
- The runner's restored Codex session reconciled the ambiguous start to
the live replacement turn (`session.reconciled`,
`activeProviderTurnId`).
- Codex then sent `turn/started` for that turn. The restored driver had
no active or pending turn, because `controllerAcceptedTurnId()` was
null, and failed with `turn_binding_mismatch`.
- The run ended `native_event_replay_conflict`, and the user needed a
second Retry.

**Expected behavior**

The restored session adopts the runner-reconciled in-flight turn and
finishes it. It does not treat it as a replay conflict.

**Steps to reproduce**

1. Start a native Codex run.
2. Send SIGTERM to the server about 0.5 s after the first `turn.start`,
before runnerd confirms it.
3. Let the server restart and resume the run (`resume_dead_runner`).
4. Before this PR, the run fails with "Provider started an unexpected
turn."

**Paperclip version or commit**

`master` before this PR.

## What Changed

- `controllerAcceptedTurnStartId(commands, options)`
(runnerd-codex-transport.ts):
- **Codex and OpenCode results.** These providers assign their own turn
ids, so an accepted result never echoes the requested `turn_lab_` id,
and RC-59 adoption never matched a real Codex result. For them, the
accepted turn is now adopted only while it is also the runner's live
active turn in its authenticated `session.snapshot`. A turn the restored
runner reports lost has no live turn, so it keeps the established
restart-continuation path. ACPX still requires the echoed id.
- **Indeterminate start.** When the latest `turn.start` (after the
latest attach) failed with `execution_indeterminate`, it adopts the
runner's live active turn. Runnerd reports one only after it reconciles
an ambiguous start to a distinct replacement turn.
- The transport records the snapshot's active turn at `thread/read`,
which `recover()` reads before it evaluates adoption.
- The driver's existing RC-59 guards still apply: the turn must be in
provider history, be the only active turn, and not already be terminal.

## Verification

- Connected restart test, `runnerd-restart-continuation.test.ts` "adopts
the in-flight turn when a restart lands just after turn.start (t77)". It
uses the real runnerd and fake Codex:
  - the runner and provider die after journaling a started turn;
  - runnerd's own restore settles the command `execution_indeterminate`;
  - recovery adopts `provider-turn-1` with no second `turn/start`.
  - It fails without the fix: nothing is adopted.
- Unit cases for `controllerAcceptedTurnStartId`:
  - a Codex-assigned id is adopted only while it is the live turn;
  - an indeterminate start is adopted with the reconciled turn;
- it fails closed with no live turn, an ordinary failed start, a later
attachment, or an ACPX id mismatch.
- Regression guarded: "starts a new turn when the restored runner
reports a lost turn the checkpoint never bound" still passes.
- `runnerd-codex-transport`, `codex-app-server-driver.recovery`,
`runnerd-codex-transport-adoption`,
`runnerd-codex-transport-cold-restore`, `runnerd-restart-continuation`
and `runnerd-controller-outage`: 383/383. Runner TypeScript typecheck is
clean.
- Live: the chaos campaign will run the `runner.turn_start.*` crash
points (Codex A1/C1) and a Codex C1 K2 storm, and post the result here.

## Risks

- **Previous-release story.** No persisted shape changes. Commands
journaled by the previous release carry forward and are read with the
new rule. An indeterminate start that the runner did not reconcile to an
active turn still fails closed, as before.
- **Wider Codex adoption.** Codex adoption now actually fires. If
runnerd ever returned an accepted result that names a turn other than
the one this command started, the driver would adopt it. Runnerd binds
the result to the exact command id, so this is the same trust the rule
already placed in ACPX.

## Model Used

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

## 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 09:26:58 -06:00
Nicky Leach 17ad23aafe fix(workspaces): back off failed terminal cleanup and retire abandoned reservations through remove (#20020) 2026-11-08 07:12:48 -08:00
DottaandClaude Opus 5.5 5de2842620 fix(restart-chaos): bound each skopeo image copy attempt (#20056)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - The restart-chaos harness downloads the signed Daytona runner image
with skopeo before each Daytona wave
> - #20021 made a failed copy retry from an empty directory, but the
retry only runs when skopeo exits
> - A hung blob read never exits, and a Daytona pull stalled for 80
minutes
> - This pull request bounds each copy attempt, so a stall is killed and
retried
> - The benefit is that one network stall costs at most one bounded
attempt, not the whole run

## Linked Issues or Issue Description

Follow-up to #20021. No duplicate PR was found.

**What happened?**

A Daytona chaos run's image pull stalled inside `skopeo copy` for 80
minutes, even after #20021. `copyImageToDir` awaited `execFile` with no
timeout, so a read that hung forever blocked the run forever.

**Expected behavior**

Each copy attempt has a time bound. A stalled attempt is killed and the
next attempt starts from an empty directory.

**Steps to reproduce**

1. Run a Daytona wave or crash point with an uncached image on a network
where a registry blob read hangs.
2. Before this PR, `skopeo copy` never returns and the run waits
indefinitely.

**Paperclip version or commit**

`master` before this PR.

## What Changed

- `copyImageToDir` passes `timeout` (default 20 minutes,
`RESTART_CHAOS_SKOPEO_ATTEMPT_TIMEOUT_MS`) and `killSignal: "SIGKILL"`
to each `skopeo copy`. A timed-out attempt counts as a failed attempt
and retries from an empty directory.
- README updated.

## Verification

- New test: a fake skopeo that writes a partial blob and then hangs is
killed after the 500 ms test bound, and the second attempt succeeds,
within 10 s.
- `pnpm exec vitest run --config tests/restart-chaos/vitest.config.ts
tests/restart-chaos/daytona-image.test.ts`: 18/18. `tsc -p
tests/restart-chaos/tsconfig.json` is clean.

## Risks

- Test harness only. A very slow but progressing pull longer than 20
minutes would now be retried; the bound is configurable.

## Model Used

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

## 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 09:07:36 -06:00
DottaandClaude Opus 5.5 c910651115 fix(native): start each rebound run with a fresh restart-continuation marker (#20053)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - When the control plane restarts during an agent turn, the runner
restores the same conversation. A Codex, Claude (ACPX) or OpenCode turn
lost in the restart is marked `provider_turn_lost_on_restore`, and the
run continues it once in the same conversation
> - That one continuation is guarded by a disposition-only recovery
marker in the session checkpoint. It is run state: it names a turn of
the run that used it
> - A follow-up run (a user comment on the same task) reuses the
provider session by re-binding the previous run's checkpoint to the new
run. Re-binding clears the run-scoped turn, result and request state,
but it kept the marker
> - The chaos K13 storm (wave w-20261108T134237-s9401) hit this three
times (t24 and t45 on Claude, t77 on Codex). The task's first run had
already used its restart continuation. The follow-up run inherited a
spent marker naming a turn it never had, so when a restart lost its own
turn, the driver kept the session closed. The run failed, and the user
had to click Retry
> - This pull request resets the marker at both re-bind sites, as for
every other run-scoped field
> - The benefit is that a restart during a follow-up turn continues on
its own instead of putting a Retry click on the user

## Linked Issues or Issue Description

Refs #19831 (durable ownership plan, restart continuation). Found by the
restart chaos campaign. In all three failed follow-up runs:

- After `resume_dead_runner`, the run emitted `turn.failed {code:
provider_turn_lost_on_restore, recoverable: true}` for its own active
turn.
- The checkpoint still carried `dispositionOnlyRecoveryConsumed: true`,
with `dispositionOnlyRecoveryTurnId` set to the previous run's
continuation turn.

## What Changed

- `native-session-resume.ts` (`rebindNativeSessionCheckpoint`) and
`native-session-executor.ts` (warm checkpoint rebind): a rebound run
starts with `dispositionOnlyRecoveryConsumed: false` and
`dispositionOnlyRecoveryTurnId: null`.
- Nothing changes inside a run: the driver's reopen rule
(`mapTerminalTurn`) and `nativeRestartInterruptedTurnId` are untouched.
The first commit changed the helper; review found the driver keeps its
own copy of the rule, and the second commit reverts the helper in favour
of this fix.

## Verification

- `native-session-resume.test.ts` "retains provider identity but clears
prior turn and event state" now seeds a spent marker on the previous
run. It fails on `master` and passes here.
- `native-session-executor.test.ts` "starts a new run's usage from the
prior run's total when a warm checkpoint resumes" (3 cases) seeds the
first run's checkpoint with a spent marker and asserts that the second
run starts with it reset. It fails on `master` and passes here.
- The other `native-session-resume.test.ts` tests pass. One test,
"archives a damaged prior epoch before completing guarded same-task
replacement with real runnerd", fails locally identically with and
without this change (ENOENT under `authority-epochs`, from the
real-runnerd environment). It's left to CI.
- Next: a targeted chaos rerun (Codex and Claude C1 under repeated K2)
on this branch. I'll add the result here.

## Risks

- **Previous-release story (upgrade-safe run state):** no persisted
shape changes. A run re-bound by this build gets a fresh marker. A run
re-bound before the deploy, still in flight with an inherited spent
marker, behaves as before: a lost turn falls back to Retry, once.
- Inside a run, nothing changes: the marker still bounds same-run
continuations, together with the provider-attempt restart budget.

## 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>
canary/v2026.1108.0-canary.16
2026-11-08 08:49:38 -06:00
DottaandClaude Opus 5.5 cf9c81d9a7 perf(run-log): record named preparation phases before dispatch as run-log spans (#20046)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Every native run records performance spans in its run log, the
instance-local `heartbeat_run_events` table, so slow turns can be
diagnosed without any external service
> - The steps between environment acquisition and dispatch are timed by
named preparation phases, but those timings reach only OpenTelemetry,
which is off unless an operator configures an endpoint
> - On a Daytona follow-up in a paperclip-sized workspace, 17–30 s sat
in one opaque span, `heartbeat.prepare_after_environment`
> - This pull request also records the named preparation phases, and
their nested steps, as run-log spans
> - The benefit is that the next slow step shows up by name in the run
log; this change found a full workspace re-upload on every remote turn

## Linked Issues or Issue Description

**What happened?**
The run log showed `heartbeat.prepare_after_environment` at 17–30 s on
Daytona follow-ups, with nothing inside it. The phases that would
explain it (`heartbeat.prepare.*`, `runtime_selection.*`,
`workspace_sync.*`) were recorded only as OpenTelemetry spans, and those
are a no-op without an OTLP endpoint.

**Steps to reproduce**
1. Run a Codex task on a Daytona environment with a large repository as
the project workspace.
2. Post a follow-up comment.
3. The run log shows one large `heartbeat.prepare_after_environment`
span with no children.

**Expected behavior**
The run log names the steps that make up the wait.

## What Changed

- `execution-preparation-timing.ts`: every named preparation phase
(`measure`) and nested run phase (`measureRunPhase`) records its start,
end and outcome in a per-run in-memory list.
- Bounds: phases under 50 ms are skipped, at most 200 per run, at most
256 runs held.
- Without a tracer, the run scope is still set, so nested phases reach
the run.
  - OpenTelemetry behavior is unchanged.
- `runtime-execution.ts`: at native dispatch, the recorded phases are
drained into the run's preparation spans under `task.prepare`.
- `runtime-selection.ts`: the remote Codex CLI version read and the
runtime context build get their own phases,
`runtime_selection.codex_cli_version` and
`runtime_selection.runtime_context`.

## Verification

- `execution-preparation-phases.test.ts`: a slow phase is recorded and a
fast one skipped, a failure is marked, draining clears the run, runs are
kept apart, and a nested `measureRunPhase` step is recorded without a
tracer.
- `database-operation-attribution`, `company-skills-observability` and
`github-catalog-timing`: pass (15 tests in total).
- Daytona Codex run in a fresh paperclip clone: the follow-up's 17.8 s
gap now reads `heartbeat.prepare.runtime_selection` 15.7 s, then
`runtime_selection.workspace_sync` 15.4 s, then
`workspace_sync.transfer` 13.3 s.

## Risks

- This is a run-log change only, not Telemetry: the data stays in the
instance database. It adds roughly 10–40 spans per run, bounded as
above.
- The recorder is in memory and per process. A run that never dispatches
is evicted when the cap of 256 runs is reached.

## Model Used

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

## 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 08:18:16 -06:00
DottaandClaude Opus 5.5 96badeaa42 fix(lifecycle): never repeat a passed harness verification; settle a dead verifier's lease at once (#20030)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - A new or reconfigured agent runs a harness verification (a hello
probe in a test sandbox) before it is ready, and its runs wait until it
passes
> - In the final Daytona restart chaos wave, a Codex agent's runs waited
about 417 s for their first sandbox, while boot took only about 32 s
> - Each control-plane restart killed the verifier. The next process
waited out the 120 s lifecycle lease and then booted a fresh sandbox.
Nothing recorded a configuration that had already passed.
> - This pull request records a passed verification by what makes it
valid and reuses it, and settles a dead verifier's lease on the shared
ownership path at once
> - The benefit is that a restart never repeats a passed verification,
and never leaves runs waiting out a dead process's lease

## Linked Issues or Issue Description

**What happened?**
In the final Daytona chaos wave, the Codex agent was created at 09:55:46
UTC and its three runs were queued. Verification ran four times, in four
sandboxes, because faults K1, K4 and K2 each killed the verifying
server. After K2 the server was ready at 10:00:20, but verification
restarted only at 10:02:13: it waited out the 120 s lifecycle lease. The
first run sandboxes were created at 10:02:43, 417 s after launch.

**Steps to reproduce**
1. Create a Codex agent and assign it a task at once, so the task waits
for harness verification.
2. Kill the control plane (SIGKILL) while the agent is verifying.
3. The restarted server waits out the dead verifier's 120 s lifecycle
lease, then verifies again in a new test target. The task's first token
arrives about 130 s after the fault.

**Expected behavior**
- A passed verification of the same effective configuration in the same
runner image is never repeated.
- A verification is never restarted from scratch while its holder
process is alive. When the holder is proven gone, its lease is settled
at once.
- Runs gate only on a configuration that has never passed.

**Root cause**
`verify()` (`server/src/services/agent-harness-verification.ts`) leased
a fresh sandbox on every attempt and recorded nothing on a pass. The
lifecycle lease (`modules/agent-lifecycle/adapters/postgres.ts`) named
no holder process, so a restart could only wait for it to expire.

## What Changed

- Restart chaos TTFT driver: a `verify` phase, reported in its own rows,
and a `--verify-fault K1|K2|K6` option. The fault fires 1 s after
`verifying` is observed, so it interrupts a held lease. The seed keeps
each agent's creation body, so the driver can hire an identical agent.

- **Persisted pass:** new columns `agents.harness_verified_digest` and
`harness_verified_at` (migration 0448). The digest is an HMAC, keyed
with the instance's decision-signing secret, over:
- the fully resolved effective configuration: every value the test used,
including `cwd`, resolved credentials, and agent-over-environment
precedence;
- the selected AI account and its credential generation (connection and
grant ids and `updatedAt`, never the credential);
  - the environment and the runner image.

The key means the stored value cannot confirm a guessed credential
offline. For a sandbox, the runner image is an immutable image digest or
a qualified Daytona snapshot ID (`sandboxBinding`, now exported). For
local runs it is the server version. A mutable image or snapshot name,
or a local environment redirected to the managed sandbox, never reuses a
pass.
- **Server-only:** `normalizeAgentBaseRow` and
`redactAgentRowForResponse` strip the digest and its timestamp from
agent API responses.
- `verify()` still runs every account, policy and secret check, then
returns complete on a matching digest without booting a test target. It
records the digest on a pass before the lifecycle step completes, so a
restart in between reuses it.
- **Lease holder:** the lifecycle `claim()` stamps the claiming
controller process on the lease (`lifecycleOperation.leaseHolder`,
supplied through the lifecycle effects port) and clears the stamp with
the lease. The compare-and-swap release lives in the lifecycle module
(`releaseAgentLifecycleLeaseOfHolderInTransaction`).
- **Shared ownership path:** a new `agent_lifecycle_lease` kind with
`settleAgentLifecycleLease`.
- When the reconciler proves the holder gone, settle clears exactly that
lease (compare-and-swap on the holder), notifies lifecycle work, and
logs `agent.lifecycle_lease_reconciled`.
- A live holder is never taken over. The lifecycle state, operation and
progress are untouched.

## Verification

- `restart-verification.test.ts` (embedded Postgres, real lifecycle
store and worker, real reconciler pass):
- A verification held by a dead process is claimed and completed at once
after the startup pass, with the agent ready in under 10 s instead of
waiting out the 120 s lease. It fails without the new kind.
  - A live holder is never taken over.
  - The claim stamps the holder, and `defer` clears it.
- `agent-harness-verification-preflight.test.ts`:
- A second `verify()` of the same configuration allocates no target. A
revoked account still fails before reuse. A changed model, `cwd` or
literal credential tests again. It fails without the reuse.
  - A failed verification records nothing.
- Ownership report, all lifecycle module tests, remote, provider-API and
unit harness verification tests, and crash-point call sites: 13 files,
220 tests pass.
- Targeted local run: the TTFT driver's new `verify` phase (`--phases
verify --verify-fault K1`, Codex, 2 samples) hires a new agent, assigns
it a task at once, kills the control plane (K1) while it verifies, and
times fault to first agent token:
- Before (master server code): 129.8 s and 129.8 s. The restarted server
waited out the dead verifier's 120 s lease. Run-log TTFT from run
creation was only 4.1 s.
- After (this branch): 15.8 s and 17.2 s. The startup reconciler pass
settled `agent_lifecycle_lease` and verification re-ran at once.

## Risks

- **A stale pass:** the digest covers every resolved value, the selected
account generation, the environment and an immutable runner image, so
any change tests again. Rotating the instance signing secret invalidates
every digest, so each agent verifies once more.
- **Migration:** two nullable columns, no backfill. Existing agents
verify once more, then reuse.
- **Settle:** it runs only on a `gone` proof, compare-and-swap on the
exact holder. It never changes the lifecycle state.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), Anthropic, via Claude Code with
tool use (shell, file editing, 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 08:10:40 -06:00
DottaandClaude Opus 5.5 bfa9002a3c test(restart-chaos): reach the stop-and-retain crash point with --daytona-reuse-lease (#20049)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - The restart-chaos crash-point suite kills the server at named
points, then checks that recovery restores every invariant
> - On Daytona, `environment.stop_retain.after_claim_before_stop` was
never reached, because no workload produced a stop-and-retain release
> - A per-turn run on a reusable sandbox lease ends every turn with
`stop_and_reuse`, which releases through exactly that stop-only claim
> - This pull request adds `--daytona-reuse-lease`, so the chaos Daytona
environment keeps reusable sandboxes and the point is reachable
> - The benefit is live coverage of the stop-and-retain crash window

## Linked Issues or Issue Description

This is a follow-up from the Phase 2 durable-ownership data
(`doc/plans/2026-11-07-phase2-reconciler-data.md`, "Not covered").
Related: #19937 (crash-point suite) and #20042 (stop-only claim fence
renewal). No duplicate PR was found.

**What happened?**

The Daytona crash-point run `cp-20261108T104102` reported
`environment.stop_retain.after_claim_before_stop` as `not_reached`. The
point needs a stop-and-retain intent, and the chaos Daytona environment
is created with ephemeral leases.

**Expected behavior**

A flag lets a Daytona wave or crash-point run use reusable leases. A
per-turn run then stops and keeps its sandbox, and the point is reached
and graded.

**Steps to reproduce**

1. Run `node scripts/crash-points.mjs --env daytona --daytona-image
<image> --points environment.stop_retain.after_claim_before_stop
--adapters codex --workloads A1`.
2. Before this PR the point is `not_reached`.
3. With `--daytona-reuse-lease --lifecycle per_turn` it is reached.

**Paperclip version or commit**

`master` at `8475826d2d` (the signed image `c24059f1…` revision).

## What Changed

- `--daytona-reuse-lease` (wave and crash-point suite, Daytona only)
creates the chaos environment with `reuseLease: true`. The crash-point
suite passes the flag through.
- The R6 sandbox sweep counts a **stopped** sandbox behind a **released
`reuse_by_environment`** lease as kept for reuse, not a leak. A later
run on the same workspace resumes it, because reuse accepts released and
retained leases. A running sandbox, or a stopped one behind an ephemeral
lease, is still a leak.
- The crash-point registry prerequisite and the README name the flag.

## Verification

- Live, Daytona, codex A1, from the image revision `8475826d2d`:
- `cp-20261108T132149`: the point was **reached** and settled with no
invariant violations. R6 flagged the stopped reusable sandbox as a leak,
which led to the sweep fix.
- `cp-20261108T133351`, with the sweep fix: **pass**. 0 orphaned
sandboxes, 0 held leases, the environment deleted, and nothing left
running.
- `pnpm exec vitest run --config tests/restart-chaos/vitest.config.ts`
passes `daytona-sweep`, `scheduler` and `crash-points` (52/52). `tsc -p
tests/restart-chaos/tsconfig.json` is clean.

## Risks

- Test harness only; the registry change is prerequisite text. Without
the flag, waves behave as before.

## Model Used

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

## 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>
canary/v2026.1108.0-canary.15
2026-11-08 08:07:19 -06:00
DottaandClaude Opus 5.5 d5cbe70636 fix(workspaces): create git worktrees one at a time per repository; retry another process's config lock (#20039)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Tasks in a project with git_worktree isolation each get their own
worktree, created with `git worktree add -b <branch> <path> <base>`
> - That command writes the repository's shared `.git/config` to record
the new branch's upstream
> - When two tasks start at once on one repository, both write
`.git/config`, and one fails with "could not lock config file"
> - The failed attempt already created its branch, so the retry attached
that branch without upstream tracking and without runtime ownership
> - This pull request serializes worktree creation per repository and
retries another process's brief config lock cleanly
> - The benefit is that simultaneous tasks on one repository start
without a failed attempt or a degraded branch

## Linked Issues or Issue Description

**What happened?**
In a TTFT measurement with a fresh clone of the paperclip repository as
the project workspace, two agents started tasks at the same time. The
Codex task's `git worktree add -b` failed twice ("error: could not lock
config file .git/config: File exists"). It then succeeded by attaching
the branch the failed attempt had created.

**Steps to reproduce**
1. Use a project whose primary workspace is a git clone, with
git_worktree isolation and a remote-tracking base ref.
2. Start several tasks in that project at the same moment.
3. Some worktree creations fail with "could not lock config file". The
task falls back to attaching the existing branch, without upstream or
branch ownership.

**Expected behavior**
Every simultaneous task gets a fresh worktree on its own new branch,
with upstream tracking, owned by the runtime.

**Root cause**
`git worktree add -b` writes `.git/config`, which git locks with
`config.lock`. Concurrent creates on one repository contend for that
lock. On a lock failure, git has already created the branch but no
worktree.

## What Changed

- `executeGitCommand` (in `workspace-runtime.ts`) runs every `git
worktree add` from `recordGitOperation`. The recorded and unrecorded
paths both use it.
- Creates in this process run one at a time per repository, keyed by the
realpath of `git rev-parse --git-common-dir`. Linked worktrees and the
primary checkout share one key.
- A create that still meets a config lock held by another process
retries after 100, 250, 500, 1000 and 2000 ms. Before each retry it
removes the branch that same `-b` command created. Git refuses an
existing branch with "already exists" before it touches config, so a
branch present after a config-lock failure is one this command made. The
retry then creates the branch again with its upstream.

## Verification

- `workspace-worktree-concurrency.test.ts`:
- Three rounds of ten simultaneous `realizeExecutionWorkspace` calls on
a fresh clone with base `origin/main`. Every workspace is `created:
true` and `branchCreatedByRuntime: true`, on its own branch. Without the
serialization it failed 3 of 3 runs.
- A create that meets `.git/config.lock`, held for 300 ms as another
process would, succeeds with the branch's upstream recorded.
- `workspace-runtime.test.ts`: 179 tests pass.

## Risks

- Worktree creation on one repository is now serial within a process.
Each create takes about 0.1–1 s, so ten simultaneous tasks add a few
seconds at most. Creates on different repositories still run in
parallel.
- The branch deletion runs only after a config-lock failure of a `-b`
create, when the branch is provably new.

## Model Used

- Claude Opus 5.5 (`claude-opus-5-5`), Anthropic, via Claude Code with
tool use (shell, file editing, 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 07:44:27 -06:00
DottaandClaude Opus 5.5 ba867dea39 fix(recovery): keep the orphan marker for a stop intent saved before #19976 (#20043)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - After a restart, the control plane stops and keeps the sandbox of an
orphaned run lease, then destroys it once nothing references it
> - #19964 marked such a sandbox only inside its stop intent; #19976
added the top-level marker the destroy looks for
> - A stop still pending when #19976 shipped lost the intent on success,
so the destroy never saw that sandbox
> - This pull request carries the orphan marker forward when a stop
intent that says `recoveredOrphanedRunLease` is confirmed
> - The benefit is that those sandboxes are destroyed like every other
retained orphan

## Linked Issues or Issue Description

Refs #19964 and #19976. This is a follow-up gap from the Phase 2
ownership migration. No duplicate PR was found.

**What happened?**

Between #19964 and #19976, the shipped builds were
`canary/v2026.1108.0-canary.6` and `canary.7`. In that window the
orphaned-run-lease settle wrote `recoveredOrphanedRunLease: true` only
on the `sandboxStopAndRetain` intent. `settleStopOnlyCleanup` removes
the intent when the stop is confirmed, and the retained-orphan kind
lists only leases with the top-level `orphanedRunLeaseRecovery` marker.
So an orphan whose stop was still pending at upgrade stays `released`
with a stopped sandbox forever.

**Expected behavior**

Once its stop is confirmed and nothing references it, the orphan is
destroyed through the retained-orphan settle, whichever build wrote the
intent.

**Steps to reproduce**

1. Write a `pending_cleanup` lease with a `sandboxStopAndRetain` intent
that has `recoveredOrphanedRunLease: true` and no top-level marker (what
canary.6/.7 wrote).
2. Confirm the stop through `settleStopOnlyCleanup`.
3. Run an ownership reconciliation pass. Before this PR the
retained-orphan kind never lists the lease.

**Paperclip version or commit**

`master` before this PR. Rows written by `canary/v2026.1108.0-canary.6`
and `canary.7`.

## What Changed

- `settleStopOnlyCleanup` writes the top-level
`orphanedRunLeaseRecovery` marker (`fromStopIntent: true`) when a
confirmed stop's intent carries `recoveredOrphanedRunLease: true` and
the lease has no marker yet.
- An ordinary stop-and-retain (no recovery flag) is not marked.

## Verification

- Red, before the change: "keeps the orphan marker for a stop intent
saved before the top-level marker existed" failed.
- Green: `environment-retained-orphan-sandbox` and
`environment-run-lease-ownership` 36/36; `environment-runtime` and
`heartbeat-pending-cleanup-sweep` 246/246.
- Counter-case: an ordinary stop-and-retain intent stays unmarked, and
the retained-orphan pass does not settle it.

## Risks

- Not covered: an orphan whose stop was confirmed *while* canary.6/.7
ran kept no durable marker at all. Its intent was removed and the
receipt never carried the flag, so it cannot be told apart from an
intentional stop-and-retain. Those rows exist only on instances that ran
those two canaries during about three hours, and the provider's own
auto-delete bounds them.

## Model Used

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

## 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 07:22:16 -06:00
DottaandClaude Opus 5.5 cefd17a82b fix(environments): renew the stop-only cleanup claim while the provider stop runs (#20042)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - When a run ends with a "stop and retain" disposition, the control
plane stops the agent's sandbox and keeps it for later recovery
> - The release claims the lease with a 15-minute in-flight fence, so no
cleanup sweep acts on it at the same time
> - The stop-only path never renewed that fence; a provider stop that
outlives 15 minutes lets a sweep take the lease over and stop it again
mid-flight
> - This pull request renews the stop-only claim every 30 s while the
provider stop runs, like the destroy claim and the pending-cleanup sweep
> - The benefit is one owner per cleanup attempt, however slow the
provider is

## Linked Issues or Issue Description

Follow-up gap from the Phase 2 ownership migration (durable ownership
and reconciliation plan). Related: #19966 (teardown claim on the shared
path), #19980 (pending-cleanup queue owner). No duplicate PR was found.

**What happened?**

`releaseRunLeases` with `providerResourceDisposition: "stop_and_retain"`
claims the lease (`pendingCleanupInFlight: true`,
`pendingCleanupLeaseExpiresAtMs: now + 15 min`) and calls the provider
stop. Nothing renewed the fence while the stop ran. The destroy claim
and the pending-cleanup sweep both renew theirs every 30 s.

**Expected behavior**

While this process is still running the provider stop, its claim stays
fenced, so no other sweep starts a second attempt.

**Steps to reproduce**

1. Release a run lease with `stop_and_retain` against a provider whose
stop RPC blocks.
2. Let more than 15 minutes pass.
3. See that the fence expired while the first stop is still in flight.

**Paperclip version or commit**

`master` before this PR.

## What Changed

- New `renewCleanupClaim(leaseId, attemptId, failure)` in
`environment-runtime.ts`. It renews `pendingCleanupLeaseExpiresAtMs`
every 30 s, only while the row still names this attempt and is in
flight.
- The destroy claim now uses the helper; its behaviour is unchanged.
- The stop-only claim starts the renewal right after the claim and stops
it before it settles the attempt, on success, on failure and in
`finally`.

## Verification

- Red, before the change: `environment-runtime.test.ts` "renews the
stop-only cleanup claim while the provider stop is still running"
failed. The fence stayed at its aged value.
- Green: `pnpm exec vitest run src/__tests__/environment-runtime.test.ts
src/__tests__/heartbeat-pending-cleanup-sweep.test.ts`, 247/247.

## Risks

- Low. One extra metadata write every 30 s per in-flight stop, the same
as for the destroy claim. The renewal is fenced on the attempt id, so it
never extends another attempt's claim.

## Model Used

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

## 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>
canary/v2026.1108.0-canary.14
2026-11-08 06:53:40 -06:00
DottaandClaude Opus 5.5 c966334ec3 fix(recovery): settle a run-less lease once its stamped holder is proven gone (#20026)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - The control plane recovers in-progress records after a server
restart through a shared ownership path
> - Run-less sandbox leases (login, probe, harness verification) were
released only by a five-minute idle sweep
> - That sweep releases by age: it leaves a dead holder's sandbox for
minutes and takes a live login session's sandbox
> - This pull request settles a run-less lease only when its stamped
holder is proven gone
> - The benefit is no stuck sandbox after a restart, and no live session
loses its sandbox

## Linked Issues or Issue Description

Related: #19965 (named the owner of login/probe leases), #19964 (the
run-lease settle this mirrors). No duplicate PR was found.

**What happened?**

The final Daytona chaos wave `w-20261108T083036-s9401` recorded I2
`environment_login_probe_lease` (`pid_dead`) on 2 records. These were
the codex agent's harness-verification leases. A restart killed their
holder. The leases stayed `active` until the five-minute idle sweep
released them. The same sweep releases any run-less lease after five
idle minutes, also when its holder is alive.

**Expected behavior**

A run-less lease is released as soon as its stamped holder is proven
gone. A lease whose holder is alive is never released, however long it
is idle.

**Steps to reproduce**

1. Start a Daytona wave: `node cli/node_modules/tsx/dist/cli.mjs
tests/restart-chaos/main.ts --env daytona --daytona-image <image>`
(K1/K4 faults).
2. Let a fault kill the server while an agent's harness verification
holds its sandbox lease.
3. See the reconciler report I2 `environment_login_probe_lease` until
the idle sweep releases it.

**Paperclip version or commit**

`master` at `8475826d2d`.

## What Changed

- New `settleEnvironmentLoginProbeLease`, registered on
`environment_login_probe_lease`. It runs only for a stamped holder that
is proven gone, and compares and swaps on that exact stamp.
- It moves the lease to `pending_cleanup` with the recovered-orphan
reason, so the cleanup sweep destroys the sandbox in its next tick.
- It leaves the lease alone when a legacy shutdown fence applies, or
when another live lease holds the same provider resource.
- The idle sweep for run-less leases now covers only legacy rows saved
before holders were stamped (no `leaseController` key). Stamped rows are
never released by age.
- `holderUnchanged` is now exported from the run-lease settle so both
settles share it.
- The controller stamp (`leaseController`, and every other
`ControllerProcess` stamp) now records the platform deployment when the
platform names one (Railway: project, environment, service, deployment,
volume). `controllerStamp` passes it to `proveOwnerGone`. A container
redeploy changes the PID space, and the old stamp would read
`different_process_space` (unprovable) forever. Now the existing
`deployment_replaced` proof shows the old holder gone. This also covers
`environment_run_lease_active` and the other kinds built on
`controllerStamp`.
- `currentDeploymentIdentity` in `owner-proof.ts` now delegates to
`currentControllerDeployment`, so there is one parser.
- Data doc: added the final Daytona wave, the six Daytona-only crash
points (4 pass, 2 not reached, no violations), and the cause of the
roughly 450 s codex TTFT. Runs waited behind the agent's harness
verification, which restarted after each fault; boot itself took about
32 s.
- Restart-chaos README: corrected which Daytona crash points a plain
task reaches.

## Verification

- Red, before the change:
`environment-login-probe-lease-ownership.test.ts` failed 3 of 6. No
settle happened, and the idle sweep released 3 live holders' leases.
- Green: `pnpm exec vitest run` passes for
`environment-login-probe-lease-ownership`,
`environment-run-lease-ownership` and
`heartbeat-orphaned-active-lease-sweep` (45/45), and for
`environment-lease-owner-stamps`,
`heartbeat-observed-workspace-preservation`,
`ownership-reconciliation-report`, `heartbeat/recovery` and
`workspace-recovery-warm-handoff`.
- Redeploy: a stamp from a replaced Railway deployment settles with
`deployment_replaced`. A stamp from the same deployment in another PID
space stays `active`. This was red when `controllerStamp` dropped the
deployment.
- Live-owner counter-cases: the current process, another live PID,
another PID space, and a lease re-stamped after the proof all stay
`active`. A read-only pass never settles.
- Not re-run live: the Daytona wave and crash points ran before this
fix. The next Daytona wave should show no
`environment_login_probe_lease` I2.

## Risks

- A stamped run-less lease whose live holder never releases it, because
of a bug in that process, is no longer released after five idle minutes.
It is released once that process exits. This is the intended trade:
never take a live holder's sandbox.
- On an ephemeral server without a platform deployment identity (not
Railway), a stamp from a replaced container is still unprovable. Such a
run-less lease stays `active` until the provider expires the sandbox,
and the reconciler reports it as unprovable. Before this PR, the
five-minute sweep released it by age. This is the same open gap as
unstamped legacy leases on an ephemeral server: there is no operator
action yet. It is listed as a Phase 2 follow-up.
- Legacy unstamped run-less leases keep the age fallback. These are rows
written before #19965, and no current code writes them.

## Model Used

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

## 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 06:43:45 -06:00
DottaandClaude Opus 5.5 20cc6faca3 feat(recovery): settle legacy shutdown fences of proven-gone servers on the shared path (#20017)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - When a server shuts down gracefully during a sandbox run, it commits
a fence on the run's lease so no cleanup worker destroys the sandbox
before its files are exported
> - The fence names its server only by boot id. It is released when its
owner settles, or when its 30 s deadline (renewed every 10 s) passes.
After a restart, the sweep still waits for that deadline even though the
old server is gone
> - The durable ownership plan proves owners by identity through one
shared prover and settles them from one reconciler
> - This pull request stamps the committing process on the fence and
settles it when the shared prover shows that process gone. The outcome
is the same safe one an expired deadline gives: the source is preserved
and the restore failure recorded
> - The benefit is that the fence releases on proof, not age, and a
fence whose owner may still be alive (another host, or an older marker)
keeps its deadline

## Linked Issues or Issue Description

Refs #19831 (plan, Phase 2 sections A and C), #19838 (inventory: "Legacy
graceful-shutdown workspace settlement fence", and "A boot-id mismatch
alone does not release").

**What happened?**
`legacy_shutdown_settlement_fence` was report-only, and its owner stamp
had only a boot id. A fence left by a crashed or replaced server could
be released only by its deadline.

**Expected behavior**
A fence whose committing process is proven gone (a dead or reused PID in
the same PID space) settles from the recovery sweep and from the shared
reconciler. An unprovable owner keeps the renewed deadline as its fenced
takeover.

## What Changed

- `legacy-shutdown-workspace-settlement.ts`:
- `beginLegacyShutdownWorkspaceSettlement` stamps `controller`
(`currentControllerProcessStamp`, no I/O).
  - New `legacyShutdownSettlementOwnerStamp`.
- `allowLegacyShutdownWorkspaceCleanup` takes `ownerProvenGone`, which
replaces only the deadline check, and only while the marker still names
that process. Every other guard is unchanged: owner stop, competing
allocations, in-flight cleanup.
- The sweep also proves the owners of fences from other boots that are
still before their deadline.
  - New `settleLegacyShutdownSettlementFence` for the reconciler.
- `recovery/ownership-registry.ts`: the kind uses the full stamp when
present and registers the settle.
- The settling-kinds list in `ownership-reconciliation-report.test.ts`
is updated.

## Verification

- `heartbeat/recovery.test.ts`: 100 pass. Three new tests fail on
`master` and pass here:
  - the fence stamps the committing process;
- a previous server proven gone settles before the deadline (restore
failure recorded);
- the reconciler settles only the proven-gone owner (a read-only pass
changes nothing). Another host and a boot-id-only marker stay pending
until their deadline, then expire as before.
- `ownership-reconciliation-report.test.ts` (25) and
`environment-retained-orphan-sandbox.test.ts` (19) pass.
- The server package typecheck passes.

## Risks

- A proven-gone owner now expires the fence up to 30 s earlier than
before. Expiry preserves the source (stop-and-retain or a
`retain_on_failure` hold) and never destroys provider files.
- Markers written before this change have no `controller` and behave
exactly as before.

## 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 06:15:36 -06:00
DottaandClaude Opus 5.5 5978b7a1e0 fix(chat): tell chat agents when the Conference Room is enabled and what it is (#20036)
## Thinking Path

> - Paperclip is the open source app people use to manage AI agents for
work
> - Agent Chat lets a person talk to an agent in a standing conversation
> - The Conference Room is a separate, experimental board chat surface
at `/<prefix>/board-chat`
> - A chat agent cannot read the experimental settings, so it cannot
know that the Conference Room exists
> - When a person asks to "discuss the launch in the conference room",
the agent treats the phrase as a metaphor and asks launch questions
> - This pull request tells the chat agent about the Conference Room
only while the experiment is on
> - The benefit is that the agent links the real surface and states its
actual scope

## Linked Issues or Issue Description

**What happened**
A person said "Let us discuss the launch in the conference room." in
Agent Chat on a local-trusted instance with Conference Room Chat
enabled. The agent's reasoning asked whether the conference room is a
Paperclip feature. It found no information, because the experimental
settings endpoint is board-only. It replied with launch questions and
gave no link to the Conference Room.

**Expected behavior**
The agent links the Conference Room (`/<prefix>/board-chat`) and says
what it is: a separate board assistant whose history does not carry over
from the chat. When the experiment is off, the agent does not mention
it.

**Steps to reproduce**
1. Enable Conference Room Chat in Instance Settings > Experimental on a
local-trusted instance.
2. Open a chat with the CEO agent.
3. Send "Let us discuss the launch in the conference room."
4. See that the reply gives no Conference Room link.

## What Changed

- Add `CONFERENCE_ROOM_CHAT_DIRECTIVE` in
`server/src/services/agent-conversations.ts`. It gives the route as a
Markdown link and states the real scope of the surface.
- Render the directive in standing-chat task markdown only when
`conferenceRoomEnabled` is true
(`server/src/services/heartbeat/task-markdown.ts`).
- Set `conferenceRoomEnabled` from the experimental settings that the
heartbeat already loads
(`server/src/services/heartbeat/task-context.ts`). No new query runs
before the turn starts.
- Add a regression test for the enabled, disabled, and non-chat cases.

## Verification

- `cd server && pnpm exec vitest run
src/services/heartbeat/task-markdown.test.ts` passes (16 tests).
- `npx tsc --noEmit -p server/tsconfig.json` passes.
- End to end: the `agent-chat.conference-room` chat eval runs with this
commit cherry-picked onto its case branch.

## Risks

- Low risk. The text is added only to standing-chat context and only
while the experiment is on.
- The directive does not check the deployment mode. It says that the
surface works only on a local single-operator instance, and the route
itself refuses other deployments with a clear error.

## 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>
canary/v2026.1108.0-canary.13
2026-11-08 06:09:32 -06:00