Codemod db pass-through calls to domain modules: tasks + agents (C1 part 1/3)

Rewrite ~525 call sites from `db.<method>()` to `db.<module>.<method>()`
for tasks and agents domains (including `getAgent`/`findAgent`/`getTask`
which live on the `entityCrud` field). Delete the corresponding
pass-through methods on AppDatabaseBase. Structural types that narrowed
`db` to a bag of flat methods (CapabilityMatchDb, EscalationDeps,
SweepStaleReviewsDeps) are reshaped to match the new namespace. Internal
callback references inside database.ts/database-base.ts now invoke the
owning module directly (e.g. `this.agents.saveAgent`) rather than the
deleted pass-through.

The codemod lives at scripts/codemod/remove-appdatabase-passthrough.mjs
and filters by owning module + optional explicit method list. It is
idempotent and does not re-rewrite already-namespaced calls.

tests/integration/document-run-provenance.spec.ts

@@ -47,7 +47,7 @@ async function createHarness() {
     repoRef: "",
     isPrimary: true,
   });
-  const agentId = db.saveAgent({
+  const agentId = db.agents.saveAgent({
     companyId,
     name: "Research Lead",
     role: "Researcher",
@@ -60,7 +60,7 @@ async function createHarness() {
     capabilities: "Research and synthesis",
     budgetMonthlyUsd: 180,
   });
-  const taskId = db.saveTask({
+  const taskId = db.tasks.saveTask({
     companyId,
     title: "Refresh the market report",
     description: "Update the report with new findings and submit it for review.",
@@ -69,7 +69,7 @@ async function createHarness() {
     priority: "high",
     status: "in_progress",
   });
-  db.setTaskType(taskId, "research");
+  db.tasks.setTaskType(taskId, "research");
 
   const existingDocumentId = db.saveDocument({
     companyId,
@@ -172,7 +172,7 @@ describe("document run provenance", () => {
       // ai_ceo + top-level CEO without `reviewDeliverables` advances
       // straight to `done` — there is no reviewer in that configuration
       // so the prior `in_review` state was a dead letter.
-      const task = harness.db.getTask(harness.taskId);
+      const task = harness.db.entityCrud.getTask(harness.taskId);
       expect(task.status).toBe("done");
     } finally {
       harness.server.stop();