[codex] Roll up May 17 branch changes (#6210)

## Thinking Path

> - Paperclip is the control plane for autonomous AI companies, so agent
work needs visible ownership, recovery, and operator controls.
> - This local branch had accumulated several related control-plane
reliability and operator-experience fixes across recovery actions,
watchdog folding, model-profile defaults, mentions, markdown editing,
plugin launchers, and small UI polish.
> - The branch needed to be converted into a PR against the current
`origin/master` without losing dirty work or including lockfile/workflow
churn.
> - The safest standalone shape is a single rollup PR because the
recovery/server/UI files overlap heavily across the local commits and
splitting would create avoidable conflicts.
> - This pull request replays the local branch onto latest
`origin/master`, preserves the uncommitted work as logical commits, and
adds a Zod 4 validator compatibility fix found during verification.
> - The benefit is that the May 17 local branch can be reviewed and
merged as one coherent, conflict-free branch under the 100-file Greptile
limit.

## What Changed

- Rebased the local May 17 branch work onto current `origin/master` in a
dedicated worktree.
- Preserved and committed previously dirty changes for recovery retry
handling, plugin/sidebar launcher polish, and `.herenow` ignores.
- Added recovery-action behavior for returning source issues to `todo`
when retrying source-scoped recovery.
- Included the existing local recovery/liveness/watchdog fold, Codex
cheap-profile, markdown/mention, duplicate-agent, and UI polish commits
from the branch.
- Normalized shared validator `z.record(...)` schemas to explicit
string-key records for Zod 4 compatibility.
- Confirmed the PR has no `pnpm-lock.yaml` or `.github/workflows/*`
changes and stays below the 100-file Greptile limit.

## Verification

- `pnpm install --frozen-lockfile --ignore-scripts`
- `npm run install` in
`node_modules/.pnpm/sqlite3@5.1.7/node_modules/sqlite3` to build the
local native sqlite3 binding after installing with scripts disabled
- `pnpm exec vitest run packages/shared/src/validators/issue.test.ts
packages/shared/src/project-mentions.test.ts
packages/adapter-utils/src/server-utils.test.ts
server/src/__tests__/heartbeat-model-profile.test.ts
server/src/__tests__/issue-recovery-actions.test.ts
server/src/__tests__/issue-agent-mutation-ownership-routes.test.ts
server/src/__tests__/heartbeat-active-run-output-watchdog.test.ts
server/src/__tests__/plugin-local-folders.test.ts
ui/src/components/IssueRecoveryActionCard.test.tsx
ui/src/components/Sidebar.test.tsx
ui/src/components/SidebarAccountMenu.test.tsx
ui/src/components/IssueProperties.test.tsx
ui/src/components/MarkdownEditor.test.tsx
ui/src/components/MarkdownBody.test.tsx
ui/src/lib/duplicate-agent-payload.test.ts
ui/src/pages/Routines.test.tsx`
- First pass: 13 files passed with 201 passing tests; 3 server files
failed before sqlite3 native binding was built.
- After rebuilding sqlite3:
`server/src/__tests__/heartbeat-model-profile.test.ts`,
`server/src/__tests__/issue-recovery-actions.test.ts`, and
`server/src/__tests__/heartbeat-active-run-output-watchdog.test.ts`
passed/loaded; embedded Postgres tests were skipped by the local host
guard.
- `pnpm --filter @paperclipai/shared typecheck`
- `pnpm --filter @paperclipai/adapter-utils typecheck`
- `pnpm --filter @paperclipai/server typecheck`
- `pnpm --filter @paperclipai/ui typecheck`

## Risks

- Medium risk: this is a broad rollup PR across recovery semantics,
server tests, shared validators, and UI surfaces.
- Some embedded Postgres tests skipped locally due the host guard, so CI
should provide the stronger database-backed signal.
- UI changes were covered by component tests, but no browser screenshot
was captured in this PR creation pass.
- This branch may overlap with existing recovery/liveness PR work; merge
this PR independently or restack/close overlapping branches rather than
merging duplicate implementations together.

> 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-based coding agent, tool-enabled local repository
and GitHub workflow, medium reasoning effort.

## 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>

ui/src/components/IssueProperties.test.tsx

@@ -121,6 +121,22 @@ async function flush() {
   });
 }
 
+async function waitForAssertion(assertion: () => void, attempts = 20) {
+  let lastError: unknown;
+
+  for (let attempt = 0; attempt < attempts; attempt += 1) {
+    try {
+      assertion();
+      return;
+    } catch (error) {
+      lastError = error;
+      await flush();
+    }
+  }
+
+  throw lastError;
+}
+
 function createIssue(overrides: Partial<Issue> = {}): Issue {
   return {
     id: "issue-1",
@@ -476,6 +492,60 @@ describe("IssueProperties", () => {
     act(() => root.unmount());
   });
 
+  it("searches all company issues when adding a blocker", async () => {
+    const onUpdate = vi.fn();
+    const loadedIssue = createIssue({ id: "issue-3", identifier: "PAP-3", title: "Loaded issue", status: "todo" });
+    const remoteIssue = createIssue({ id: "issue-99", identifier: "PAP-99", title: "Remote blocker", status: "in_progress" });
+    mockIssuesApi.list.mockImplementation((_companyId: string, filters?: { q?: string; limit?: number }) => {
+      if (filters?.q === "remote") return Promise.resolve([remoteIssue]);
+      return Promise.resolve([loadedIssue]);
+    });
+
+    const root = renderProperties(container, {
+      issue: createIssue(),
+      childIssues: [],
+      onUpdate,
+      inline: true,
+    });
+    await flush();
+
+    const addButton = Array.from(container.querySelectorAll("button"))
+      .find((button) => button.textContent?.includes("Add blocker"));
+    expect(addButton).not.toBeUndefined();
+
+    await act(async () => {
+      addButton!.dispatchEvent(new MouseEvent("click", { bubbles: true }));
+    });
+    await flush();
+
+    const searchInput = container.querySelector('input[aria-label="Search issues to add as blockers"]') as HTMLInputElement | null;
+    expect(searchInput).not.toBeNull();
+
+    await act(async () => {
+      const nativeSetter = Object.getOwnPropertyDescriptor(HTMLInputElement.prototype, "value")?.set;
+      nativeSetter?.call(searchInput, "remote");
+      searchInput!.dispatchEvent(new Event("input", { bubbles: true }));
+    });
+
+    await waitForAssertion(() => {
+      expect(mockIssuesApi.list).toHaveBeenCalledWith("company-1", { q: "remote", limit: 50 });
+      expect(container.textContent).toContain("PAP-99 Remote blocker");
+      expect(container.textContent).not.toContain("PAP-3 Loaded issue");
+    });
+
+    const candidateButton = Array.from(container.querySelectorAll("button"))
+      .find((button) => button.textContent?.includes("PAP-99 Remote blocker"));
+    expect(candidateButton).not.toBeUndefined();
+
+    await act(async () => {
+      candidateButton!.dispatchEvent(new MouseEvent("click", { bubbles: true }));
+    });
+
+    expect(onUpdate).toHaveBeenCalledWith({ blockedByIssueIds: ["issue-99"] });
+
+    act(() => root.unmount());
+  });
+
   it("removes a blocked-by issue from the chip remove action after confirmation", async () => {
     const onUpdate = vi.fn();
     const root = renderProperties(container, {