test: fix post-sync verification regressions

packages/db/src/migrations/meta/_journal.json

@@ -278,15 +278,15 @@
     {
       "idx": 39,
       "version": "7",
-      "when": 1773927102783,
+      "when": 1773926116580,
-      "tag": "0039_eager_shotgun",
+      "tag": "0038_fat_magneto",
       "breakpoints": true
     },
     {
       "idx": 40,
       "version": "7",
-      "when": 1773926116580,
+      "when": 1773927102783,
-      "tag": "0038_fat_magneto",
+      "tag": "0039_eager_shotgun",
       "breakpoints": true
     }
   ]

server/src/__tests__/agent-permissions-routes.test.ts

@@ -76,19 +76,27 @@ const mockSecretService = vi.hoisted(() => ({
   resolveAdapterConfigForRuntime: vi.fn(),
 }));
 
+const mockAgentInstructionsService = vi.hoisted(() => ({}));
+const mockCompanySkillService = vi.hoisted(() => ({
+  listRuntimeSkillEntries: vi.fn(),
+  resolveRequestedSkillKeys: vi.fn(),
+}));
 const mockWorkspaceOperationService = vi.hoisted(() => ({}));
 const mockLogActivity = vi.hoisted(() => vi.fn());
 
 vi.mock("../services/index.js", () => ({
   agentService: () => mockAgentService,
+  agentInstructionsService: () => mockAgentInstructionsService,
   accessService: () => mockAccessService,
   approvalService: () => mockApprovalService,
+  companySkillService: () => mockCompanySkillService,
   budgetService: () => mockBudgetService,
   heartbeatService: () => mockHeartbeatService,
   issueApprovalService: () => mockIssueApprovalService,
   issueService: () => mockIssueService,
   logActivity: mockLogActivity,
   secretService: () => mockSecretService,
+  syncInstructionsBundleConfigFromFilePath: vi.fn((_agent, config) => config),
   workspaceOperationService: () => mockWorkspaceOperationService,
 }));
 
@@ -141,6 +149,8 @@ describe("agent permission routes", () => {
     mockAccessService.listPrincipalGrants.mockResolvedValue([]);
     mockAccessService.ensureMembership.mockResolvedValue(undefined);
     mockAccessService.setPrincipalPermission.mockResolvedValue(undefined);
+    mockCompanySkillService.listRuntimeSkillEntries.mockResolvedValue([]);
+    mockCompanySkillService.resolveRequestedSkillKeys.mockImplementation(async (_companyId, requested) => requested);
     mockBudgetService.upsertPolicy.mockResolvedValue(undefined);
     mockSecretService.normalizeAdapterConfigForPersistence.mockImplementation(async (_companyId, config) => config);
     mockSecretService.resolveAdapterConfigForRuntime.mockImplementation(async (_companyId, config) => ({ config }));

server/src/__tests__/agent-skills-routes.test.ts

@@ -14,6 +14,10 @@ const mockAgentService = vi.hoisted(() => ({
 const mockAccessService = vi.hoisted(() => ({
   canUser: vi.fn(),
   hasPermission: vi.fn(),
+  getMembership: vi.fn(),
+  listPrincipalGrants: vi.fn(),
+  ensureMembership: vi.fn(),
+  setPrincipalPermission: vi.fn(),
 }));
 
 const mockApprovalService = vi.hoisted(() => ({}));
@@ -186,6 +190,10 @@ describe("agent skill routes", () => {
     mockLogActivity.mockResolvedValue(undefined);
     mockAccessService.canUser.mockResolvedValue(true);
     mockAccessService.hasPermission.mockResolvedValue(true);
+    mockAccessService.getMembership.mockResolvedValue(null);
+    mockAccessService.listPrincipalGrants.mockResolvedValue([]);
+    mockAccessService.ensureMembership.mockResolvedValue(undefined);
+    mockAccessService.setPrincipalPermission.mockResolvedValue(undefined);
   });
 
   it("skips runtime materialization when listing Claude skills", async () => {

server/src/__tests__/company-portability.test.ts

@@ -17,6 +17,7 @@ const accessSvc = {
   ensureMembership: vi.fn(),
   listActiveUserMemberships: vi.fn(),
   copyActiveUserMemberships: vi.fn(),
+  setPrincipalPermission: vi.fn(),
 };
 
 const projectSvc = {
@@ -258,6 +259,7 @@ describe("company portability", () => {
     assetSvc.getById.mockReset();
     assetSvc.getById.mockResolvedValue(null);
     assetSvc.create.mockReset();
+    accessSvc.setPrincipalPermission.mockResolvedValue(undefined);
     assetSvc.create.mockResolvedValue({
       id: "asset-created",
     });

server/src/routes/companies.ts

@@ -7,7 +7,6 @@ import {
   createCompanySchema,
   updateCompanyBrandingSchema,
   updateCompanySchema,
-  updateCompanyBrandingSchema,
 } from "@paperclipai/shared";
 import { forbidden } from "../errors.js";
 import { validate } from "../middleware/validate.js";