[codex] Add agent permissions and controls plan (#6386)

## Thinking Path

> - Paperclip orchestrates AI agents for zero-human companies by keeping
task ownership, approvals, and operator control inside one control
plane.
> - Agent permissions and plugin-hosted company settings sit on the
boundary between autonomy and governance.
> - V1 needs scoped task assignment rules, plugin extension points, and
clearer company access surfaces without weakening company boundaries.
> - The branch builds the core authorization service, plugin SDK/host
APIs, and UI simplifications needed to support those controls.
> - Paperclip EE plugin surfaces were intentionally moved out of this
core PR per review direction, so this PR now carries only the public
core/plugin infrastructure work.
> - The latest updates preserve the PAP-9937 branch changes that belong
in this PR, remove the `design/` artifacts, and exclude the experimental
`plugin-briefs` package.
> - Greptile feedback was applied through the authorization/audit paths
and the final cleanup commit was re-reviewed at 5/5 with no unresolved
Greptile threads.
> - The benefit is safer assignment control with extension hooks for
richer permission products while preserving simple defaults for normal
operators.

## What Changed

- Added scoped task-assignment authorization decisions and routed
issue/agent assignment mutations through the authorization service.
- Added plugin SDK and host APIs for company settings slots,
authorization policy/grant management, assignment previews, and bridge
invocation scope propagation.
- Simplified core company access UI and moved advanced controls behind
plugin-provided settings surfaces.
- Added retry-now affordances for blocked issue next-step notices.
- Added protected-assignment enforcement for persisted
agent/project/issue policies, including explicit-grant fallback
behavior.
- Added incremental principal-access compatibility backfill for active
agent memberships and role-default human permission grants.
- Added the Markdown code block wrap action fix from the latest branch
changes.
- Removed `design/` artifacts from the PR and removed
`packages/plugins/plugin-briefs` from the final diff.
- Addressed Greptile feedback for plugin actor sanitization, legacy
membership handling, audit pagination, unknown grant-scope metadata, and
startup test mocks.

## Verification

- `pnpm exec vitest run server/src/__tests__/access-service.test.ts
server/src/__tests__/company-portability.test.ts` -> 2 files passed, 54
tests passed.
- `pnpm exec vitest run
server/src/__tests__/server-startup-feedback-export.test.ts
server/src/__tests__/access-service.test.ts
server/src/__tests__/company-portability.test.ts` -> 3 files passed, 62
tests passed.
- `pnpm exec vitest run
server/src/__tests__/authorization-service.test.ts
server/src/__tests__/plugin-access-authorization-host-services.test.ts
server/src/__tests__/server-startup-feedback-export.test.ts` -> 3 files
passed, 28 tests passed.
- `pnpm --filter @paperclipai/server typecheck` -> passed.
- `git diff --check` -> passed.
- `node ./scripts/check-docker-deps-stage.mjs` -> passed.
- `CI=true pnpm install --frozen-lockfile --ignore-scripts` -> passed
with no lockfile update.
- `pnpm exec vitest run
ui/src/components/MarkdownBody.interaction.test.tsx` -> 1 test passed.
- `git ls-files design packages/plugins/plugin-briefs | wc -l` -> 0.
- GitHub CI on `40cd83b53` -> all checks passed, merge state `CLEAN`.
- Greptile on `40cd83b53` -> 5/5, 102 files reviewed, 0
comments/annotations added, 0 unresolved review threads.
- Confirmed the PR diff contains no `design/`,
`packages/plugins/plugin-briefs`, `pnpm-lock.yaml`, or
`.github/workflows` changes.

## Risks

- Medium: task assignment authorization paths are behaviorally stricter
for protected/private policy data, so existing plugin-authored policies
may block assignment until explicit grants or approval flows are
configured.
- Medium: plugin-host authorization APIs expand the surface area
available to trusted plugins and need careful review for company
scoping.
- Low: startup now performs a principal-access compatibility backfill,
but the migration and runtime backfill use conflict-tolerant inserts.

> 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 workflow with shell,
git, and GitHub CLI access.

## 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>

ui/src/pages/CompanySettingsPluginPage.test.tsx

@@ -0,0 +1,140 @@
+// @vitest-environment jsdom
+
+import { act } from "react";
+import { createRoot } from "react-dom/client";
+import { QueryClient, QueryClientProvider } from "@tanstack/react-query";
+import { afterEach, beforeEach, describe, expect, it, vi } from "vitest";
+import { CompanySettingsPluginPage } from "./CompanySettingsPluginPage";
+
+const mockSetBreadcrumbs = vi.hoisted(() => vi.fn());
+const mockUsePluginSlots = vi.hoisted(() => vi.fn());
+const mockParams = vi.hoisted(() => ({
+  companyPrefix: "PAP" as string | undefined,
+  settingsRoutePath: "permissions" as string | undefined,
+}));
+
+vi.mock("@/context/BreadcrumbContext", () => ({
+  useBreadcrumbs: () => ({
+    setBreadcrumbs: mockSetBreadcrumbs,
+  }),
+}));
+
+vi.mock("@/context/CompanyContext", () => ({
+  useCompany: () => ({
+    companies: [{ id: "company-1", name: "Paperclip", issuePrefix: "PAP" }],
+    selectedCompanyId: "company-1",
+  }),
+}));
+
+vi.mock("@/lib/router", () => ({
+  Link: ({ to, children }: { to: string; children: React.ReactNode }) => <a href={to}>{children}</a>,
+  useLocation: () => ({ pathname: "/PAP/company/settings/permissions", search: "", hash: "" }),
+  useParams: () => mockParams,
+}));
+
+vi.mock("@/plugins/slots", () => ({
+  usePluginSlots: mockUsePluginSlots,
+  PluginSlotMount: ({
+    slot,
+    context,
+  }: {
+    slot: { displayName: string };
+    context: { companyId: string | null; companyPrefix: string | null };
+  }) => (
+    <div data-testid="plugin-slot-mount">
+      {slot.displayName}:{context.companyId}:{context.companyPrefix}
+    </div>
+  ),
+}));
+
+// eslint-disable-next-line @typescript-eslint/no-explicit-any
+(globalThis as any).IS_REACT_ACT_ENVIRONMENT = true;
+
+async function flushReact() {
+  await act(async () => {
+    await Promise.resolve();
+    await new Promise((resolve) => window.setTimeout(resolve, 0));
+  });
+}
+
+async function renderPage(container: HTMLDivElement) {
+  const root = createRoot(container);
+  const queryClient = new QueryClient({
+    defaultOptions: { queries: { retry: false } },
+  });
+
+  await act(async () => {
+    root.render(
+      <QueryClientProvider client={queryClient}>
+        <CompanySettingsPluginPage />
+      </QueryClientProvider>,
+    );
+  });
+  await flushReact();
+  return root;
+}
+
+describe("CompanySettingsPluginPage", () => {
+  let container: HTMLDivElement;
+
+  beforeEach(() => {
+    container = document.createElement("div");
+    document.body.appendChild(container);
+    mockParams.companyPrefix = "PAP";
+    mockParams.settingsRoutePath = "permissions";
+    mockUsePluginSlots.mockReturnValue({
+      slots: [
+        {
+          type: "companySettingsPage",
+          id: "permissions",
+          displayName: "Permissions",
+          exportName: "PermissionsPage",
+          routePath: "permissions",
+          pluginId: "plugin-1",
+          pluginKey: "permissions-extension",
+          pluginDisplayName: "Permissions Extension",
+          pluginVersion: "0.1.0",
+        },
+      ],
+      isLoading: false,
+      errorMessage: null,
+    });
+  });
+
+  afterEach(() => {
+    container.remove();
+    document.body.innerHTML = "";
+    vi.clearAllMocks();
+  });
+
+  it("mounts the matching company settings slot with company context", async () => {
+    const root = await renderPage(container);
+
+    expect(container.querySelector('[data-testid="plugin-slot-mount"]')?.textContent).toBe(
+      "Permissions:company-1:PAP",
+    );
+    expect(mockSetBreadcrumbs).toHaveBeenCalledWith([
+      { label: "Settings", href: "/company/settings" },
+      { label: "Permissions" },
+    ]);
+
+    await act(async () => {
+      root.unmount();
+    });
+  });
+
+  it("fails closed when no ready plugin declares the route", async () => {
+    mockUsePluginSlots.mockReturnValue({
+      slots: [],
+      isLoading: false,
+      errorMessage: null,
+    });
+    const root = await renderPage(container);
+
+    expect(container.textContent).toContain("Page not found");
+
+    await act(async () => {
+      root.unmount();
+    });
+  });
+});