refactor(ts): make port effect native

ts/GOAL.md

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+# Goal Prompt
+
+```text
+/goal In `/home/elpresidank/YeeBois/dev/trustgraph/ts`, implement the Effect-native rewrite described in `EFFECT_NATIVE_REWRITE_PLAN.md`.
+
+Follow the plan as the source of truth. The desired end state is that production TrustGraph APIs are Effect-first throughout backend/pubsub, messaging, processor/runtime, flow services, gateway, CLI, and service runners.
+
+Hard constraints:
+- Preserve existing features and wire behavior.
+- Remove Promise-returning TrustGraph production APIs instead of keeping dual Promise/Effect methods.
+- Remove production `Effect.runPromise` / `ManagedRuntime` compatibility bridges.
+- Remove Fastify, `@fastify/websocket`, and Commander.
+- Rebuild gateway surfaces with Effect v4 native `effect/unstable/httpapi`, `effect/unstable/http`, `effect/unstable/rpc`, and socket/platform layers.
+- Rebuild CLI surfaces with `effect/unstable/cli`.
+- Keep the existing native `effect/unstable/ai/McpServer` MCP rewrite; do not reintroduce server-side `@modelcontextprotocol/sdk` or `zod` in `packages/mcp`.
+- Use `/home/elpresidank/YeeBois/projects/beep-effect/.repos/effect-v4` as the Effect v4 source reference.
+- Preserve unrelated dirty work.
+
+Work in staged gates:
+1. Backend and NATS Effect API.
+2. Messaging and processor API cleanup.
+3. Flow service call-site migration.
+4. Gateway HttpApi/RPC migration.
+5. CLI/script migration.
+6. Dependency cleanup and final verification.
+
+Run the smallest relevant tests after each stage. Final done means all of these are green:
+`bun run check:tsgo`
+`bun run build`
+`bun run lint`
+`bun run test`
+`bun run --cwd packages/mcp test`
+`bun run workbench:qa`
+`git diff --check`
+
+Also verify no production Fastify/Commander use remains, and no production `Effect.runPromise`, `ManagedRuntime.make`, Promise API, or `async function main` remains in TrustGraph package/source surfaces except tests or unavoidable external type declarations.
+```