diff --git a/compose/README.md b/compose/README.md
index 6aca6f5..2099c0a 100644
--- a/compose/README.md
+++ b/compose/README.md
@@ -453,4 +453,4 @@ To add a new compose file:
 
 ---
 
-See `COMPOSE_BRAINSTORM.md` for future compose variants and design ideas.
+See `docs/compose-brainstorm.md` for future compose variants and design ideas.
diff --git a/COMPOSE_BRAINSTORM.md b/docs/compose-brainstorm.md
similarity index 100%
rename from COMPOSE_BRAINSTORM.md
rename to docs/compose-brainstorm.md
diff --git a/netengine/workers/__init__.py b/netengine/workers/__init__.py
index 1cc940a..8b0063a 100644
--- a/netengine/workers/__init__.py
+++ b/netengine/workers/__init__.py
@@ -1 +1 @@
-# netengine/workers/ - Background worker tasks
+"""Background worker tasks."""
diff --git a/pyproject.toml b/pyproject.toml
index ec30239..a11f079 100644
--- a/pyproject.toml
+++ b/pyproject.toml
@@ -85,32 +85,3 @@ markers = [
     "integration: Integration tests (requires Docker)",
     "slow: Slow tests",
 ]
-
-[tool.flake8]
-max-line-length = 100
-extend-ignore = ["E203", "W503"]
-exclude = [
-    "tests",
-    "netengine/phases",
-    "netengine/utils",
-    "netengine/api",
-    "netengine/cli",
-    "netengine/core/pgmq_client.py",
-    "netengine/core/supabase_client.py",
-    "netengine/handlers/substrate.py",
-    "netengine/handlers/dns.py",
-    "netengine/handlers/pki_handler.py",
-    "netengine/handlers/phase_pki.py",
-    "netengine/handlers/oidc_handler.py",
-    "netengine/handlers/gateway_handler.py",
-    "netengine/handlers/docker_handler.py",
-    "netengine/handlers/and_handler.py",
-    "netengine/handlers/domain_registry_handler.py",
-    "netengine/handlers/mail_handler.py",
-    "netengine/handlers/minio_handler.py",
-    "netengine/handlers/app_handler.py",
-    "netengine/handlers/whois_server.py",
-    "netengine/handlers/world_registry_handler.py",
-    "netengine/logging/middleware.py",
-    "netengine/logging/sinks.py",
-]
diff --git a/tests/conftest.py b/tests/conftest.py
index 91f678a..07776ba 100644
--- a/tests/conftest.py
+++ b/tests/conftest.py
@@ -71,6 +71,13 @@ def dev_sandbox_spec() -> NetEngineSpec:
     return load_spec(examples_dir / "dev-sandbox.yaml")
 
 
+@pytest.fixture
+def m3_spec() -> NetEngineSpec:
+    """Full valid spec for M3 orchestrator tests."""
+    examples_dir = _get_examples_dir()
+    return load_spec(examples_dir / "minimal.yaml")
+
+
 # ─────────────────────────────────────────────
 # Runtime State Fixtures
 # ─────────────────────────────────────────────
diff --git a/tests/integration/test_m3_bootstrap.py b/tests/integration/test_m3_bootstrap.py
index 3e2a611..7a74029 100644
--- a/tests/integration/test_m3_bootstrap.py
+++ b/tests/integration/test_m3_bootstrap.py
@@ -1,6 +1,5 @@
 """Integration tests for M3 bootstrap (Phases 3-4: PKI + Platform Identity)."""
 
-from pathlib import Path
 from unittest.mock import AsyncMock, patch
 
 import pytest
@@ -8,15 +7,6 @@
 from netengine.core.orchestrator import Orchestrator
 from netengine.handlers.phase_pki import PKIPhaseHandler
 from netengine.phases.phase_platform_identity import PlatformIdentityPhaseHandler
-from netengine.spec.loader import load_spec
-
-_EXAMPLES = Path(__file__).parent.parent.parent / "examples"
-
-
-@pytest.fixture
-def m3_spec():
-    """Full valid spec for M3 orchestrator tests."""
-    return load_spec(_EXAMPLES / "minimal.yaml")
 
 
 class TestPKIPhaseHandlerContract:
diff --git a/tests/integration/test_orchestrator_m3.py b/tests/integration/test_orchestrator_m3.py
index 2e5f76a..fee70e1 100644
--- a/tests/integration/test_orchestrator_m3.py
+++ b/tests/integration/test_orchestrator_m3.py
@@ -1,6 +1,5 @@
 """Tests for Orchestrator with M3 phases."""
 
-from pathlib import Path
 from unittest.mock import AsyncMock, patch
 
 import pytest
@@ -8,9 +7,6 @@
 from netengine.core.orchestrator import Orchestrator
 from netengine.handlers.phase_pki import PKIPhaseHandler
 from netengine.phases.phase_platform_identity import PlatformIdentityPhaseHandler
-from netengine.spec.loader import load_spec
-
-_EXAMPLES = Path(__file__).parent.parent.parent / "examples"
 
 
 async def _set_substrate_output(context):
@@ -25,12 +21,6 @@ async def _set_pki_output(context):
     context.runtime_state.pki_bootstrapped = True
 
 
-@pytest.fixture
-def m3_spec():
-    """Full valid spec for M3 orchestrator tests."""
-    return load_spec(_EXAMPLES / "minimal.yaml")
-
-
 class TestOrchestratorPhaseExecution:
     """Tests for Orchestrator.execute_phases() behavior."""