[codex] Add structured issue-thread interactions (#4244)

## Thinking Path

> - Paperclip orchestrates AI agents for zero-human companies.
> - Operators supervise that work through issues, comments, approvals,
and the board UI.
> - Some agent proposals need structured board/user decisions, not
hidden markdown conventions or heavyweight governed approvals.
> - Issue-thread interactions already provide a natural thread-native
surface for proposed tasks and questions.
> - This pull request extends that surface with request confirmations,
richer interaction cards, and agent/plugin/MCP helpers.
> - The benefit is that plan approvals and yes/no decisions become
explicit, auditable, and resumable without losing the single-issue
workflow.

## What Changed

- Added persisted issue-thread interactions for suggested tasks,
structured questions, and request confirmations.
- Added board UI cards for interaction review, selection, question
answers, and accept/reject confirmation flows.
- Added MCP and plugin SDK helpers for creating interaction cards from
agents/plugins.
- Updated agent wake instructions, onboarding assets, Paperclip skill
docs, and public docs to prefer structured confirmations for
issue-scoped decisions.
- Rebased the branch onto `public-gh/master` and renumbered branch
migrations to `0063` and `0064`; the idempotency migration uses `ADD
COLUMN IF NOT EXISTS` for old branch users.

## Verification

- `git diff --check public-gh/master..HEAD`
- `pnpm exec vitest run packages/adapter-utils/src/server-utils.test.ts
packages/mcp-server/src/tools.test.ts
packages/shared/src/issue-thread-interactions.test.ts
ui/src/lib/issue-thread-interactions.test.ts
ui/src/lib/issue-chat-messages.test.ts
ui/src/components/IssueThreadInteractionCard.test.tsx
ui/src/components/IssueChatThread.test.tsx
server/src/__tests__/issue-thread-interaction-routes.test.ts
server/src/__tests__/issue-thread-interactions-service.test.ts
server/src/services/issue-thread-interactions.test.ts` -> 9 files / 79
tests passed
- `pnpm -r typecheck` -> passed, including `packages/db` migration
numbering check

## Risks

- Medium: this adds a new issue-thread interaction model across
db/shared/server/ui/plugin surfaces.
- Migration risk is reduced by placing this branch after current master
migrations (`0063`, `0064`) and making the idempotency column add
idempotent for users who applied the old branch numbering.
- UI interaction behavior is covered by component tests, but this PR
does not include browser screenshots.

> 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-class coding agent runtime. Exact model ID and
context window are not exposed in this Paperclip run; tool use and local
shell/code execution were 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 run tests locally and they pass
- [x] I have added or updated tests where applicable
- [ ] 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>

server/src/__tests__/user-profile-routes.test.ts

@@ -1,7 +1,7 @@
 import { randomUUID } from "node:crypto";
 import express from "express";
 import request from "supertest";
-import { afterAll, afterEach, beforeAll, beforeEach, describe, expect, it } from "vitest";
+import { afterAll, afterEach, beforeAll, beforeEach, describe, expect, it, vi } from "vitest";
 import {
   activityLog,
   agents,
@@ -13,12 +13,12 @@ import {
   issueComments,
   issues,
 } from "@paperclipai/db";
-import { errorHandler } from "../middleware/index.js";
-import { userProfileRoutes } from "../routes/user-profiles.js";
 import {
   getEmbeddedPostgresTestSupport,
   startEmbeddedPostgresTestDatabase,
 } from "./helpers/embedded-postgres.js";
+let errorHandler: typeof import("../middleware/index.js").errorHandler;
+let userProfileRoutes: typeof import("../routes/user-profiles.js").userProfileRoutes;
 
 const embeddedPostgresSupport = await getEmbeddedPostgresTestSupport();
 const describeEmbeddedPostgres = embeddedPostgresSupport.supported ? describe : describe.skip;
@@ -42,6 +42,16 @@ describeEmbeddedPostgres("GET /companies/:companyId/users/:userSlug/profile", ()
   }, 20_000);
 
   beforeEach(async () => {
+    vi.resetModules();
+    vi.doUnmock("../routes/user-profiles.js");
+    vi.doUnmock("../routes/authz.js");
+    vi.doUnmock("../middleware/index.js");
+    const [routes, middleware] = await Promise.all([
+      vi.importActual<typeof import("../routes/user-profiles.js")>("../routes/user-profiles.js"),
+      vi.importActual<typeof import("../middleware/index.js")>("../middleware/index.js"),
+    ]);
+    userProfileRoutes = routes.userProfileRoutes;
+    errorHandler = middleware.errorHandler;
     companyId = randomUUID();
     userId = randomUUID();
     agentId = randomUUID();
@@ -97,6 +107,9 @@ describeEmbeddedPostgres("GET /companies/:companyId/users/:userSlug/profile", ()
   });
 
   function createApp() {
+    if (!userProfileRoutes || !errorHandler) {
+      throw new Error("user profile route test dependencies were not loaded");
+    }
     const app = express();
     app.use(express.json());
     app.use((req, _res, next) => {