test(skills): add scan-projects route test for skipped/conflicts return

Verifies the scan endpoint returns skipped and conflicts arrays in the
response, covering the prune path where removed skills are either
skipped (orphaned) or added to conflicts (still used by agents).

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>

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

@@ -76,6 +76,7 @@ describe("company skill mutation permissions", () => {
       discovered: [],
       imported: [],
       updated: [],
+      skipped: [],
       conflicts: [],
       warnings: [],
     });
@@ -277,6 +278,53 @@ describe("company skill mutation permissions", () => {
     expect(mockCompanySkillService.scanProjectWorkspaces).toHaveBeenCalledWith("company-1", {});
   });
 
+  it("returns skipped and conflicts from scan including pruned skill conflicts", async () => {
+    mockAgentService.getById.mockResolvedValue({
+      id: "agent-1",
+      companyId: "company-1",
+      permissions: { canCreateAgents: true },
+    });
+
+    const skippedSkill = { id: "skill-1", slug: "removed-skill", name: "Removed Skill" };
+    const conflictEntry = {
+      path: "https://github.com/vercel-labs/agent-browser",
+      existingSkillId: "skill-2",
+      existingSkillKey: "vercel-labs/agent-browser/ghost-skill",
+      existingSourceLocator: "https://github.com/vercel-labs/agent-browser",
+      reason: 'Skill "ghost-skill" was removed from https://github.com/vercel-labs/agent-browser but is still used by Builder. Detach it from those agents first.',
+    };
+
+    mockCompanySkillService.scanProjectWorkspaces.mockResolvedValueOnce({
+      scannedProjects: 1,
+      scannedWorkspaces: 1,
+      discovered: [],
+      imported: [],
+      updated: [],
+      skipped: [skippedSkill],
+      conflicts: [conflictEntry],
+      warnings: [],
+    });
+
+    const res = await request(await createApp({
+      type: "agent",
+      agentId: "agent-1",
+      companyId: "company-1",
+      runId: "run-1",
+    }))
+      .post("/api/companies/company-1/skills/scan-projects")
+      .send({});
+
+    expect(res.status, JSON.stringify(res.body)).toBe(200);
+    expect(res.body).toMatchObject({
+      skipped: [{ id: "skill-1", slug: "removed-skill" }],
+      conflicts: [{
+        path: "https://github.com/vercel-labs/agent-browser",
+        existingSkillId: "skill-2",
+        reason: expect.stringContaining("was removed from"),
+      }],
+    });
+  });
+
   it("allows agents with canCreateAgents to mutate company skills", async () => {
     mockAgentService.getById.mockResolvedValue({
       id: "agent-1",