chore: drop github-app-auth + swap GHCR→ECR (closes #157, #161)

Two coupled cleanups for the post-2026-05-06 stack:

#157 — drop molecule-ai-plugin-github-app-auth
============================================
The plugin injected GITHUB_TOKEN/GH_TOKEN via the App's
installation-access flow (~hourly rotation). Per-agent Gitea
identities replaced this approach after the 2026-05-06 suspension —
workspaces now provision with a per-persona Gitea PAT from .env
instead of an App-rotated token. The plugin code itself lived on
github.com/Molecule-AI/molecule-ai-plugin-github-app-auth which is
also unreachable post-suspension; checking it out at CI build time
was already failing.

Removed:
- workspace-server/cmd/server/main.go: githubappauth import + the
  `if os.Getenv("GITHUB_APP_ID") != ""` block that called
  BuildRegistry. gh-identity remains as the active mutator.
- workspace-server/Dockerfile + Dockerfile.tenant: COPY of the
  sibling repo + the `replace github.com/Molecule-AI/molecule-ai-
  plugin-github-app-auth => /plugin` directive injection.
- workspace-server/go.mod + go.sum: github-app-auth dep entry
  (cleaned up by `go mod tidy`).
- 3 workflows: actions/checkout steps for the sibling plugin repo:
    - .github/workflows/codeql.yml (Go matrix path)
    - .github/workflows/harness-replays.yml
    - .github/workflows/publish-workspace-server-image.yml

Verified `go build ./cmd/server` + `go vet ./...` pass post-removal.

#161 — swap GHCR→ECR for publish-workspace-server-image
=======================================================
Same workflow used to push to ghcr.io/molecule-ai/platform +
platform-tenant. ghcr.io/molecule-ai is gone post-suspension. The
operator's ECR org (153263036946.dkr.ecr.us-east-2.amazonaws.com/
molecule-ai/) already hosts platform-tenant + workspace-template-*
+ runner-base images and is the post-suspension SSOT for container
images. This PR aligns publish-workspace-server-image with that
stack.

- env.IMAGE_NAME + env.TENANT_IMAGE_NAME repointed to ECR URL.
- docker/login-action swapped for aws-actions/configure-aws-
  credentials@v4 + aws-actions/amazon-ecr-login@v2 chain (the
  standard ECR auth pattern; uses AWS_ACCESS_KEY_ID/SECRET secrets
  bound to the molecule-cp IAM user).

The :staging-<sha> + :staging-latest tag policy is unchanged —
staging-CP's TENANT_IMAGE pin still points at :staging-latest, just
with the new registry prefix.

Refs molecule-core#157, #161; parallel to org-wide CI-green sweep.

.github/workflows/codeql.yml

@@ -55,17 +55,8 @@ jobs:
       - name: Checkout
         uses: actions/checkout@de0fac2e4500dabe0009e67214ff5f5447ce83dd # v6.0.2
 
-      - name: Checkout sibling plugin repo
+      # github-app-auth sibling-checkout removed 2026-05-07 (#157):
-        # Same reasoning as publish-workspace-server-image.yml — the Go
+      # plugin was dropped + the Dockerfile no longer needs it.
-        # module's replace directive needs the plugin source so
-        # CodeQL's "go build" phase can resolve.
-        if: matrix.language == 'go'
-        uses: actions/checkout@de0fac2e4500dabe0009e67214ff5f5447ce83dd # v6.0.2
-        with:
-          repository: Molecule-AI/molecule-ai-plugin-github-app-auth
-          path: molecule-ai-plugin-github-app-auth
-          token: ${{ secrets.PLUGIN_REPO_PAT || secrets.GITHUB_TOKEN }}
-
       # jq is pre-installed on ubuntu-latest — no setup step needed.
 
       - name: Initialize CodeQL

.github/workflows/harness-replays.yml

@@ -95,16 +95,8 @@ jobs:
       - if: needs.detect-changes.outputs.run == 'true'
         uses: actions/checkout@de0fac2e4500dabe0009e67214ff5f5447ce83dd # v6.0.2
 
-      - name: Checkout sibling plugin repo
+      # github-app-auth sibling-checkout removed 2026-05-07 (#157):
-        # Dockerfile.tenant copies molecule-ai-plugin-github-app-auth/
+      # the plugin was dropped + Dockerfile.tenant no longer COPYs it.
-        # at the build-context root (see workspace-server/Dockerfile.tenant
-        # line 19). PLUGIN_REPO_PAT pattern matches publish-workspace-server-image.yml.
-        if: needs.detect-changes.outputs.run == 'true'
-        uses: actions/checkout@de0fac2e4500dabe0009e67214ff5f5447ce83dd # v6.0.2
-        with:
-          repository: Molecule-AI/molecule-ai-plugin-github-app-auth
-          path: molecule-ai-plugin-github-app-auth
-          token: ${{ secrets.PLUGIN_REPO_PAT || secrets.GITHUB_TOKEN }}
 
       - name: Install Python deps for replays
         # peer-discovery-404 (and future replays) eval Python against the

.github/workflows/publish-workspace-server-image.yml

@@ -60,8 +60,8 @@ permissions:
   packages: write
 
 env:
-  IMAGE_NAME: ghcr.io/molecule-ai/platform
+  IMAGE_NAME: 153263036946.dkr.ecr.us-east-2.amazonaws.com/molecule-ai/platform
-  TENANT_IMAGE_NAME: ghcr.io/molecule-ai/platform-tenant
+  TENANT_IMAGE_NAME: 153263036946.dkr.ecr.us-east-2.amazonaws.com/molecule-ai/platform-tenant
 
 jobs:
   build-and-push:
@@ -70,31 +70,28 @@ jobs:
       - name: Checkout
         uses: actions/checkout@de0fac2e4500dabe0009e67214ff5f5447ce83dd # v6.0.2
 
-      - name: Checkout sibling plugin repo
+      # github-app-auth sibling-checkout removed 2026-05-07 (#157):
-        # workspace-server/Dockerfile expects
+      # plugin was dropped + workspace-server/Dockerfile no longer
-        # ./molecule-ai-plugin-github-app-auth at build-context root because
+      # COPYs it.
-        # the Go module has a `replace` directive pointing at /plugin inside
-        # the image. Pre-repo-split the plugin lived in the monorepo; the
-        # 2026-04-18 restructure moved it out but didn't add this clone step
-        # — which is why publish was failing after that restructure.
-        #
-        # Uses a fine-grained PAT (PLUGIN_REPO_PAT) because the plugin repo
-        # is private and the default GITHUB_TOKEN is scoped to THIS repo.
-        # The PAT needs Contents:Read on Molecule-AI/molecule-ai-plugin-
-        # github-app-auth. Falls back to the default token for the (rare)
-        # case where an operator made the plugin repo public.
-        uses: actions/checkout@de0fac2e4500dabe0009e67214ff5f5447ce83dd # v6.0.2
-        with:
-          repository: Molecule-AI/molecule-ai-plugin-github-app-auth
-          path: molecule-ai-plugin-github-app-auth
-          token: ${{ secrets.PLUGIN_REPO_PAT || secrets.GITHUB_TOKEN }}
 
-      - name: Log in to GHCR
+      - name: Configure AWS credentials for ECR
-        uses: docker/login-action@c94ce9fb468520275223c153574b00df6fe4bcc9 # v3
+        # GHCR was the pre-suspension target; the molecule-ai org on
+        # GitHub got swept 2026-05-06 and ghcr.io/molecule-ai/* is no
+        # longer reachable. Post-suspension target is the operator's
+        # ECR org (153263036946.dkr.ecr.us-east-2.amazonaws.com/
+        # molecule-ai/*), which already hosts platform-tenant +
+        # workspace-template-* + runner-base images. AWS creds come
+        # from the AWS_ACCESS_KEY_ID/SECRET secrets bound to the
+        # molecule-cp IAM user. Closes #161.
+        uses: aws-actions/configure-aws-credentials@v4
         with:
-          registry: ghcr.io
+          aws-access-key-id: ${{ secrets.AWS_ACCESS_KEY_ID }}
-          username: ${{ github.actor }}
+          aws-secret-access-key: ${{ secrets.AWS_SECRET_ACCESS_KEY }}
-          password: ${{ secrets.GITHUB_TOKEN }}
+          aws-region: us-east-2
+
+      - name: Log in to ECR
+        id: ecr-login
+        uses: aws-actions/amazon-ecr-login@v2
 
       - name: Set up Docker Buildx
         uses: docker/setup-buildx-action@4d04d5d9486b7bd6fa91e7baf45bbb4f8b9deedd # v4.0.0

workspace-server/Dockerfile

@@ -5,15 +5,11 @@
 
 FROM golang:1.25-alpine AS builder
 WORKDIR /app
-# Plugin source for replace directive in go.mod
-COPY molecule-ai-plugin-github-app-auth/ /plugin/
 COPY workspace-server/go.mod workspace-server/go.sum ./
-# Add replace directives for Docker builds:
+# github-app-auth plugin removed 2026-05-07 (#157): per-agent Gitea
-# 1. Platform → plugin (plugin source at /plugin/)
+# identities replaced the GitHub-App-installation token flow after the
-# 2. Plugin → platform (plugin's go.mod has a relative replace that doesn't
+# 2026-05-06 suspension. Pre-removal this stage COPY'd the sibling
-#    work in Docker; fix it to point at /app where the platform source lives)
+# plugin repo + injected a `replace` directive; both are gone.
-RUN echo 'replace github.com/Molecule-AI/molecule-ai-plugin-github-app-auth => /plugin' >> go.mod
-RUN sed -i 's|replace github.com/Molecule-AI/molecule-monorepo/platform => .*|replace github.com/Molecule-AI/molecule-monorepo/platform => /app|' /plugin/go.mod
 RUN go mod download
 COPY workspace-server/ .
 # GIT_SHA mirror of Dockerfile.tenant — see that file for the rationale.

workspace-server/Dockerfile.tenant

@@ -16,9 +16,10 @@
 # ── Stage 1: Go platform binary ──────────────────────────────────────
 FROM golang:1.25-alpine AS go-builder
 WORKDIR /app
-COPY molecule-ai-plugin-github-app-auth/ /plugin/
 COPY workspace-server/go.mod workspace-server/go.sum ./
-RUN echo 'replace github.com/Molecule-AI/molecule-ai-plugin-github-app-auth => /plugin' >> go.mod
+# github-app-auth plugin removed 2026-05-07 (#157): per-agent Gitea
+# identities replaced GitHub-App tokens post-suspension. The sibling
+# COPY + replace directive are gone.
 RUN go mod download
 COPY workspace-server/ .
 

workspace-server/cmd/server/main.go

@@ -29,8 +29,7 @@ import (
 
 	// External plugins — each registers EnvMutator(s) that run at workspace
 	// provision time. Loaded via soft-dep gates in main() so self-hosters
-	// without the App or without per-agent identity configured keep working.
+	// without per-agent identity configured keep working.
-	githubappauth "github.com/Molecule-AI/molecule-ai-plugin-github-app-auth/pluginloader"
 	ghidentity "github.com/Molecule-AI/molecule-ai-plugin-gh-identity/pluginloader"
 
 	"github.com/Molecule-AI/molecule-monorepo/platform/pkg/provisionhook"
@@ -179,12 +178,15 @@ func main() {
 	}
 
 	// External-plugin env mutators — each plugin contributes 0+ mutators
-	// onto a shared registry. Order matters: gh-identity populates
+	// onto a shared registry. gh-identity populates MOLECULE_AGENT_ROLE-
-	// MOLECULE_AGENT_ROLE-derived attribution env vars that downstream
+	// derived attribution env vars that the workspace's install.sh can
-	// mutators and the workspace's install.sh can then read. Keep
+	// then read.
-	// github-app-auth last because it fails loudly on misconfig and its
+	//
-	// failure mode is "no GITHUB_TOKEN" — worth surfacing after the
+	// github-app-auth was dropped 2026-05-07 (closes #157): per-agent
-	// cheaper mutators already ran.
+	// Gitea identities (this gh-identity plugin's role-derived path)
+	// replaced GitHub-App-installation tokens after the 2026-05-06
+	// suspension. Workspaces now provision with a per-persona Gitea PAT
+	// from .env instead of an App-rotated GITHUB_TOKEN.
 	envReg := provisionhook.NewRegistry()
 
 	// gh-identity plugin — per-agent attribution via env injection + gh
@@ -198,26 +200,6 @@ func main() {
 		log.Printf("gh-identity: registered (config file=%q)", os.Getenv("MOLECULE_GH_IDENTITY_CONFIG_FILE"))
 	}
 
-	// github-app-auth plugin — injects GITHUB_TOKEN + GH_TOKEN into every
-	// workspace env using the App's installation access token (rotates ~hourly).
-	// Soft-skip when GITHUB_APP_* env vars are absent so dev/self-hosters
-	// without an App configured keep working; fail-loud only on MISCONFIG
-	// (e.g. APP_ID set but key file missing), not on unset.
-	if os.Getenv("GITHUB_APP_ID") != "" {
-		if reg, err := githubappauth.BuildRegistry(); err != nil {
-			log.Fatalf("github-app-auth plugin: %v", err)
-		} else {
-			// Copy the plugin's mutators onto the shared registry so the
-			// TokenProvider probe (FirstTokenProvider) still finds them.
-			for _, m := range reg.Mutators() {
-				envReg.Register(m)
-			}
-			log.Printf("github-app-auth: registered, %d mutator(s) added to chain", reg.Len())
-		}
-	} else {
-		log.Println("github-app-auth: GITHUB_APP_ID unset — skipping plugin registration (agents will use any PAT from .env)")
-	}
-
 	wh.SetEnvMutators(envReg)
 	log.Printf("env-mutator chain: %v", envReg.Names())
 

workspace-server/go.mod

@@ -5,7 +5,6 @@ go 1.25.0
 require (
 	github.com/DATA-DOG/go-sqlmock v1.5.2
 	github.com/Molecule-AI/molecule-ai-plugin-gh-identity v0.0.0-20260424033845-4fd5ac7be30f
-	github.com/Molecule-AI/molecule-ai-plugin-github-app-auth v0.0.0-20260421064811-7d98ae51e31d
 	github.com/alicebob/miniredis/v2 v2.37.0
 	github.com/creack/pty v1.1.24
 	github.com/docker/docker v28.5.2+incompatible

workspace-server/go.sum

@@ -6,8 +6,6 @@ github.com/Microsoft/go-winio v0.6.2 h1:F2VQgta7ecxGYO8k3ZZz3RS8fVIXVxONVUPlNERo
 github.com/Microsoft/go-winio v0.6.2/go.mod h1:yd8OoFMLzJbo9gZq8j5qaps8bJ9aShtEA8Ipt1oGCvU=
 github.com/Molecule-AI/molecule-ai-plugin-gh-identity v0.0.0-20260424033845-4fd5ac7be30f h1:YkLRhUg+9qr9OV9N8dG1Hj0Ml7TThHlRwh5F//oUJVs=
 github.com/Molecule-AI/molecule-ai-plugin-gh-identity v0.0.0-20260424033845-4fd5ac7be30f/go.mod h1:NqdtlWZDJvpXNJRHnMkPhTKHdA1LZTNH+63TB66JSOU=
-github.com/Molecule-AI/molecule-ai-plugin-github-app-auth v0.0.0-20260421064811-7d98ae51e31d h1:GpYhP6FxaJZc1Ljy5/YJ9ZIVGvfOqZBmDolNr2S5x2g=
-github.com/Molecule-AI/molecule-ai-plugin-github-app-auth v0.0.0-20260421064811-7d98ae51e31d/go.mod h1:3a6LR/zd7FjR9ZwLTbytwYlWuCBsbCOVFlEg0WnoYiM=
 github.com/alicebob/miniredis/v2 v2.37.0 h1:RheObYW32G1aiJIj81XVt78ZHJpHonHLHW7OLIshq68=
 github.com/alicebob/miniredis/v2 v2.37.0/go.mod h1:TcL7YfarKPGDAthEtl5NBeHZfeUQj6OXMm/+iu5cLMM=
 github.com/bsm/ginkgo/v2 v2.12.0 h1:Ny8MWAHyOepLGlLKYmXG4IEkioBysk6GpaRTLC8zwWs=