v1.89.0.0 feat: add shared-code extraction audit (#2925)

* feat: bind shared-code review advice to source and branch

* feat: add shared-code extraction audit and scoped review checks

* test: recognize complete source reads and explicit coverage legends

* chore: bump version and changelog (v1.88.0.0)

Co-Authored-By: OpenAI Codex <noreply@openai.com>

* test: capture native review questions and retain public evidence

Capture the actual first public native question with strict ownership and display matching. Preserve terminal failures and raw evidence, and retain SDK completion checks.

* test: recognize verified review evidence and complete fixtures

Recognize complete source and diagram evidence, concrete design and developer-experience decisions, and the complete planted scenario contracts. Preserve negative controls and grading thresholds.

* fix: preserve decision brief structure in native questions

Keep the required pros-and-cons heading and final Net field in native question text. Regenerate host outputs and document the release and evaluation repairs.

Co-Authored-By: OpenAI Codex <noreply@openai.com>

* docs: update project documentation for v1.88.0.0

Co-Authored-By: OpenAI Codex <noreply@openai.com>

* fix: correct eval retry accounting and ship workflow gates

* fix: capture native eval evidence and stabilize CI fixtures

* fix: keep shared-code eval skips read-only

Choose explicit no-change answers instead of mixed fix/preservation options.
Reuse the bounded revalidation prompt for path fixtures so required review
metadata is available without repeated discovery. Preserve source checks,
retry limits, and failed native terminal outcomes.

Add captured-question and callback regressions, plus evaluation selection
coverage for the affected fixtures.

---------

Co-authored-by: OpenAI Codex <noreply@openai.com>

ship/sections/plan-completion.md.tmpl

@@ -7,7 +7,7 @@
 **Subagent prompt:** Pass these instructions to the subagent:
 
 ````text
-You are running a ship-workflow plan completion audit. The base branch is `<base>`. Use `git diff <base>...HEAD` to see what shipped. Do not commit or push. Report only: classify every item, but do not execute Gate Logic, ask the user, or advance the workflow. The parent applies those gates to your report.
+You are running a ship-workflow plan completion audit. The base branch is `<base>`. Use `git diff origin/<base>` and inspect untracked files from `git status` to see the full proposed change. Do not commit or push. Report only: classify every item, but do not execute Gate Logic, ask the user, or advance the workflow. The parent applies those gates to your report.
 
 {{PLAN_COMPLETION_AUDIT_SHIP}}
 
@@ -18,12 +18,12 @@ Counts map one-to-one to the classifications above and sum to total_items. No pl
 
 **Parent processing:**
 
-1. Parse the LAST line of the subagent's output as JSON.
+1. Parse the LAST line as JSON. A non-null `error`, any missing count or count that is not a nonnegative integer, classification count sum unequal to `total_items`, or non-string `summary` takes the audit-failure fallback below. Validate every count field in the contract above. Valid no-plan/no-actionable-item reports retain zero counts and their summary.
 2. Store the counts for Step 20 metrics; use `summary` in PR body.
-3. Apply Gate Logic below to `not_done` and `unverifiable` before continuing. Track user-approved deferrals separately; `partial` items receive a PR note, not the NOT DONE gate.
+3. Apply Gate Logic below to `not_done` and `unverifiable` before continuing. Carry approved deferrals, with item text and plan path, to Step 14; keep them separate from dropped scope. `partial` items receive a PR note, not the NOT DONE gate.
 4. Embed `summary` in PR body's `## Plan Completion` section (Step 19). For the UNVERIFIABLE gate, also embed `## Plan Completion — Manual Verifications` with each Y response's evidence and each D response's dropped item.
 
-**If the subagent fails, returns invalid JSON, or never completes (backgrounded despite the flag, or no final output after ~10 minutes — stop waiting; if a backgrounded task is still running, stop it first so a late result never races the fallback):** Fall back to running the audit inline (parent processes the same plan-extraction + classification logic). If the inline fallback also fails (e.g., plan file unreadable, parser error), do NOT silently pass — surface the failure as an explicit AskUserQuestion: "Plan Completion audit could not run ({reason}). Options: (A) Skip audit and ship anyway — record that the audit was skipped in PR body and Step 20 metrics; (B) Stop and fix the audit." Default and recommended option is (B). Silent fail-open is the failure shape that VAS-449 surfaced.
+**If the subagent fails, returns invalid JSON, or has no final output after ~10 minutes:** Stop any still-running background task before an inline fallback using the same extraction/classification logic; never race its late result. If fallback also fails, AskUserQuestion: "Audit failed ({reason}): A) Skip audit and ship anyway, recording the skip in PR body and Step 20 metrics; B) Stop and fix the audit (recommended/default)." Silent fail-open is the failure shape that VAS-449 surfaced.
 
 ---
 
@@ -31,6 +31,9 @@ Counts map one-to-one to the classifications above and sum to total_items. No pl
 
 {{PLAN_VERIFICATION_EXEC}}
 
+The parent now runs Prior Learnings and its cross-project setting question when
+offered, before Step 9, even when no plan file was found.
+
 {{LEARNINGS_SEARCH:query=release ship version changelog merge pr}}
 
 {{SCOPE_DRIFT}}