diff --git a/ci_cd/run_migration.py b/ci_cd/run_migration.py
index feec4046ee1..00307eeae37 100644
--- a/ci_cd/run_migration.py
+++ b/ci_cd/run_migration.py
@@ -4,6 +4,7 @@ import re
 import shutil
 import subprocess
 import sys
+import tempfile
 from datetime import datetime
 from pathlib import Path
 
@@ -235,8 +236,11 @@ def create_migration(
         with testing.postgresql.Postgresql() as postgresql:
             db_url = postgresql.url()
 
-            # Create temporary migrations directory next to schema.prisma
-            temp_migrations_dir = schema_path.parent / "migrations"
+            # A temp dir outside the repo, never a fixed path under root_dir -
+            # `root_dir / "migrations"` collides with the real, tracked
+            # top-level migrations/ directory (Dockerfile, run.py), and the
+            # rmtree in the `finally` block below would permanently delete it.
+            temp_migrations_dir = Path(tempfile.mkdtemp(prefix="litellm_migrations_")) / "migrations"
 
             try:
                 # Copy existing migrations to temp directory
diff --git a/litellm-proxy-extras/litellm_proxy_extras/migrations/20260711194200_add_claude_code_skill_marketplaces/migration.sql b/litellm-proxy-extras/litellm_proxy_extras/migrations/20260711194200_add_claude_code_skill_marketplaces/migration.sql
new file mode 100644
index 00000000000..e8e8ba0bd7f
--- /dev/null
+++ b/litellm-proxy-extras/litellm_proxy_extras/migrations/20260711194200_add_claude_code_skill_marketplaces/migration.sql
@@ -0,0 +1,31 @@
+-- AlterTable
+ALTER TABLE "LiteLLM_ClaudeCodePluginTable" ADD COLUMN     "marketplace_id" TEXT;
+
+-- AlterTable
+ALTER TABLE "LiteLLM_ObjectPermissionTable" ADD COLUMN     "allowed_skills" TEXT[] DEFAULT ARRAY[]::TEXT[];
+
+-- CreateTable
+CREATE TABLE "LiteLLM_SkillMarketplaceTable" (
+    "id" TEXT NOT NULL,
+    "name" TEXT NOT NULL,
+    "display_name" TEXT,
+    "source_type" TEXT NOT NULL,
+    "source_ref" TEXT,
+    "branch" TEXT DEFAULT 'main',
+    "owner_name" TEXT,
+    "owner_email" TEXT,
+    "enabled" BOOLEAN NOT NULL DEFAULT true,
+    "sync_status" TEXT NOT NULL DEFAULT 'pending',
+    "sync_error" TEXT,
+    "skipped_count" INTEGER NOT NULL DEFAULT 0,
+    "last_synced_at" TIMESTAMP(3),
+    "created_at" TIMESTAMP(3) DEFAULT CURRENT_TIMESTAMP,
+    "updated_at" TIMESTAMP(3) DEFAULT CURRENT_TIMESTAMP,
+    "created_by" TEXT,
+
+    CONSTRAINT "LiteLLM_SkillMarketplaceTable_pkey" PRIMARY KEY ("id")
+);
+
+-- CreateIndex
+CREATE UNIQUE INDEX "LiteLLM_SkillMarketplaceTable_name_key" ON "LiteLLM_SkillMarketplaceTable"("name");
+