refactor(config): remove legacy config reference handling and streamline YAML management

- Deleted legacy config reference handling functions and related migration scripts to simplify the codebase.
- Updated documentation to reflect the removal of legacy YAML paths and configurations.
- Adjusted existing YAML management processes to ensure compatibility with the new mustache-style syntax.
- Removed tests related to legacy config references, focusing on current functionality and ensuring clarity in the testing suite.

packages/server/migrations/20260830000005_script_state.js

@@ -0,0 +1,24 @@
+/**
+ * @param {import("knex").Knex} knex
+ */
+export async function up(knex) {
+  await knex.schema.createTable("script_state", (t) => {
+    t.text("namespace").notNullable();
+    t.text("key").notNullable();
+    t.text("value").notNullable();
+    t.text("updated_at").notNullable();
+    t.text("expires_at");
+    t.primary(["namespace", "key"]);
+  });
+
+  await knex.schema.raw(
+    "CREATE INDEX script_state_namespace_updated_at_idx ON script_state (namespace, updated_at DESC)",
+  );
+}
+
+/**
+ * @param {import("knex").Knex} knex
+ */
+export async function down(knex) {
+  await knex.schema.dropTableIfExists("script_state");
+}