fix(fleet): seed seat MCP preflight config

AMD1213-B5: derive Claude seat MCP configuration from the active installed runtime base and inspect the isolated seat during fleet launch.

packages/mosaic/framework/tools/_scripts/mosaic-ensure-sequential-thinking

@@ -5,6 +5,7 @@ MOSAIC_HOME="${MOSAIC_HOME:-$HOME/.config/mosaic}"
 MODE="apply"
 RUNTIME="all"
 STRICT_CHECK=0
+CLAUDE_CONFIG_DIR=""
 
 PKG="@modelcontextprotocol/server-sequential-thinking"
 
@@ -29,6 +30,14 @@ while [[ $# -gt 0 ]]; do
       STRICT_CHECK=1
       shift
       ;;
+    --claude-config-dir)
+      if [[ $# -lt 2 ]]; then
+        err "--claude-config-dir requires an absolute seat config directory"
+        exit 2
+      fi
+      CLAUDE_CONFIG_DIR="$2"
+      shift 2
+      ;;
     *)
       err "Unknown argument: $1"
       exit 2
@@ -67,10 +76,16 @@ warm_package() {
 }
 
 check_claude_config() {
-  python3 - <<'PY'
+  CLAUDE_CONFIG_DIR="$CLAUDE_CONFIG_DIR" python3 - <<'PY'
 import json
+import os
 from pathlib import Path
-p = Path.home() / ".claude" / "settings.json"
+# Claude reads MCP definitions from .claude.json, not settings.json. The
+# settings.json fallback preserves legacy operator flows until their config is migrated.
+config_dir = os.environ.get("CLAUDE_CONFIG_DIR")
+p = Path(config_dir) / ".claude.json" if config_dir else Path.home() / ".claude.json"
+if not p.exists() and not config_dir:
+    p = Path.home() / ".claude" / "settings.json"
 if not p.exists():
     raise SystemExit(1)
 try:
@@ -92,10 +107,15 @@ PY
 }
 
 apply_claude_config() {
-  python3 - <<'PY'
+  CLAUDE_CONFIG_DIR="$CLAUDE_CONFIG_DIR" python3 - <<'PY'
 import json
+import os
 from pathlib import Path
-p = Path.home() / ".claude" / "settings.json"
+# Claude reads MCP definitions from .claude.json for both operator and
+# explicitly isolated fleet config dirs. The checker retains a settings.json
+# fallback only to avoid breaking legacy operator configurations.
+config_dir = os.environ.get("CLAUDE_CONFIG_DIR")
+p = Path(config_dir) / ".claude.json" if config_dir else Path.home() / ".claude.json"
 p.parent.mkdir(parents=True, exist_ok=True)
 if p.exists():
     try: