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.

src/main/checkpoint-engine.ts

@@ -48,8 +48,8 @@ export function createCheckpointEngine(deps: CheckpointDeps) {
         const mode = getCompanyExecutionMode(db, companyId);
         if (mode !== "ai_cofounder") return null;
 
-        const task = db.getTask(taskId);
-        const taskType = db.getTaskType(taskId);
+        const task = db.entityCrud.getTask(taskId);
+        const taskType = db.tasks.getTaskType(taskId);
 
         // Only create plan checkpoints for non-code task types
         if (!taskType || !CHECKPOINT_TASK_TYPES.has(taskType)) return null;