[codex] Refresh docs and agent skills (#4693)

## Thinking Path

> - Paperclip orchestrates AI agents through a company-scoped control
plane
> - Contributors and agents need docs and skills that match the current
V1 behavior
> - The source branch included documentation updates alongside
implementation work
> - Keeping docs and skill guidance separate makes the implementation PR
easier to review
> - This pull request refreshes the V1 docs and agent-operating guidance
without changing runtime behavior
> - The benefit is current contributor guidance that can merge
independently from code changes

## What Changed

- Refreshed V1 product, goal, implementation, database, and development
documentation.
- Updated the Paperclip heartbeat skill guidance and create-agent skill
references.
- Added the Paperclip plan-to-task conversion skill.
- Updated release changelog skill guidance.

## Verification

- `git diff --check public-gh/master..HEAD` passed in the PR worktree
after the Greptile fix.
- Greptile Review passed on head `673317ed` with zero unresolved review
threads.
- GitHub PR checks passed on head `673317ed`: `policy`, `verify`, `e2e`,
and `security/snyk (cryppadotta)`.

## Risks

- Low runtime risk because this branch only changes docs and skill
guidance.
- Documentation may need follow-up wording adjustments if reviewers want
a different framing for V1 behavior.

> 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

- OpenAI Codex, GPT-5 coding agent, tool-enabled terminal/GitHub
workflow. Exact runtime context window was not exposed by the harness.

## 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 run tests locally and they pass
- [x] I have added or updated tests where applicable
- [x] If this change affects the UI, I have included before/after
screenshots
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] I will address all Greptile and reviewer comments before
requesting merge

---------

Co-authored-by: Paperclip <noreply@paperclip.ing>

skills/paperclip-create-agent/SKILL.md

@@ -83,9 +83,9 @@ curl -sS "$PAPERCLIP_API_URL/llms/agent-icons.txt" \
 - leave timer heartbeats off by default; only set `runtimeConfig.heartbeat.enabled=true` with an `intervalSec` when the role genuinely needs scheduled recurring work or the user explicitly asked for it
 - if the role may handle private advisories or sensitive disclosures, confirm a confidential workflow exists first (dedicated skill or documented manual process)
 - capabilities
-- run prompt in adapter config (`promptTemplate` where applicable)
+- managed instructions bundle (`AGENTS.md`) for adapters that support it; avoid durable `promptTemplate` config
 - for coding or execution agents, include the Paperclip execution contract: start actionable work in the same heartbeat; do not stop at a plan unless planning was requested; leave durable progress with a clear next action; use child issues for long or parallel delegated work instead of polling; mark blocked work with owner/action; respect budget, pause/cancel, approval gates, and company boundaries
-- instruction text such as `AGENTS.md` built from step 4; for local managed-bundle adapters, put the adapted `AGENTS.md` content in `adapterConfig.promptTemplate` unless you are a board user intentionally managing bundle paths/files
+- instruction text such as `AGENTS.md` built from step 4; for local managed-bundle adapters, send this as top-level `instructionsBundle.files["AGENTS.md"]`. Do not set `adapterConfig.promptTemplate` or `bootstrapPromptTemplate` for new agents.
 - source issue linkage (`sourceIssueId` or `sourceIssueIds`) when this hire came from an issue
 
 ### 7. Review the draft against the quality checklist
@@ -109,6 +109,7 @@ curl -sS -X POST "$PAPERCLIP_API_URL/api/companies/$PAPERCLIP_COMPANY_ID/agent-h
     "desiredSkills": ["vercel-labs/agent-browser/agent-browser"],
     "adapterType": "codex_local",
     "adapterConfig": {"cwd": "/abs/path/to/repo", "model": "o4-mini"},
+    "instructionsBundle": {"files": {"AGENTS.md": "You are the CTO..."}},
     "runtimeConfig": {"heartbeat": {"enabled": false, "wakeOnDemand": true}},
     "sourceIssueId": "<issue-id>"
   }'