diff --git a/runtime/settings-defaults.js b/runtime/settings-defaults.js
index 497f95c..409d8b4 100644
--- a/runtime/settings-defaults.js
+++ b/runtime/settings-defaults.js
@@ -9,6 +9,8 @@ function clampIntValue(value, fallback = 0, min = 0, max = 9999) {
   return Math.min(max, Math.max(min, Math.trunc(numeric)));
 }
 
+const NATIVE_ROLLOUT_VERSION = 1;
+
 export const defaultSettings = {
   enabled: true,
   debugLoggingEnabled: false,
@@ -124,6 +126,7 @@ export const defaultSettings = {
   persistNativeDeltaBridgeMode: "json",
   loadUseNativeHydrate: true,
   loadNativeHydrateThresholdRecords: 12000,
+  nativeRolloutVersion: NATIVE_ROLLOUT_VERSION,
   nativeEngineFailOpen: true,
   graphNativeForceDisable: false,
 
@@ -237,8 +240,31 @@ export function migrateLegacyAutoMaintenanceSettings(loaded = {}) {
   return migrated;
 }
 
+export function migrateNativeRolloutSettings(loaded = {}) {
+  if (!loaded || typeof loaded !== "object" || Array.isArray(loaded)) {
+    return {};
+  }
+
+  const migrated = { ...loaded };
+  const rolloutVersion = clampIntValue(
+    migrated.nativeRolloutVersion,
+    0,
+    0,
+    NATIVE_ROLLOUT_VERSION,
+  );
+  if (rolloutVersion < NATIVE_ROLLOUT_VERSION) {
+    migrated.graphUseNativeLayout = defaultSettings.graphUseNativeLayout;
+    migrated.persistUseNativeDelta = defaultSettings.persistUseNativeDelta;
+    migrated.loadUseNativeHydrate = defaultSettings.loadUseNativeHydrate;
+  }
+  migrated.nativeRolloutVersion = NATIVE_ROLLOUT_VERSION;
+  return migrated;
+}
+
 export function mergePersistedSettings(loaded = {}) {
-  const compatibleLoaded = migrateLegacyAutoMaintenanceSettings(loaded);
+  const compatibleLoaded = migrateNativeRolloutSettings(
+    migrateLegacyAutoMaintenanceSettings(loaded),
+  );
   const merged = { ...defaultSettings };
   for (const key of DEFAULT_SETTING_KEYS) {
     if (Object.prototype.hasOwnProperty.call(compatibleLoaded, key)) {
diff --git a/tests/default-settings.mjs b/tests/default-settings.mjs
index bde079c..3c763d2 100644
--- a/tests/default-settings.mjs
+++ b/tests/default-settings.mjs
@@ -78,6 +78,7 @@ assert.equal(defaultSettings.persistNativeDeltaThresholdSerializedChars, 4000000
 assert.equal(defaultSettings.persistNativeDeltaBridgeMode, "json");
 assert.equal(defaultSettings.loadUseNativeHydrate, true);
 assert.equal(defaultSettings.loadNativeHydrateThresholdRecords, 12000);
+assert.equal(defaultSettings.nativeRolloutVersion, 1);
 assert.equal(defaultSettings.nativeEngineFailOpen, true);
 assert.equal(defaultSettings.graphNativeForceDisable, false);
 assert.equal(defaultSettings.taskProfilesVersion, 3);
@@ -116,4 +117,29 @@ assert.equal(
   defaultSettings.compressionEveryN,
 );
 
+const migratedLegacyNativeDisabled = mergePersistedSettings({
+  graphUseNativeLayout: false,
+  persistUseNativeDelta: false,
+  loadUseNativeHydrate: false,
+  graphNativeForceDisable: true,
+});
+assert.equal(migratedLegacyNativeDisabled.graphUseNativeLayout, true);
+assert.equal(migratedLegacyNativeDisabled.persistUseNativeDelta, true);
+assert.equal(migratedLegacyNativeDisabled.loadUseNativeHydrate, true);
+assert.equal(migratedLegacyNativeDisabled.graphNativeForceDisable, true);
+assert.equal(migratedLegacyNativeDisabled.nativeRolloutVersion, 1);
+
+const migratedVersionedManualNativeDisabled = mergePersistedSettings({
+  nativeRolloutVersion: 1,
+  graphUseNativeLayout: false,
+  persistUseNativeDelta: false,
+  loadUseNativeHydrate: false,
+  graphNativeForceDisable: true,
+});
+assert.equal(migratedVersionedManualNativeDisabled.graphUseNativeLayout, false);
+assert.equal(migratedVersionedManualNativeDisabled.persistUseNativeDelta, false);
+assert.equal(migratedVersionedManualNativeDisabled.loadUseNativeHydrate, false);
+assert.equal(migratedVersionedManualNativeDisabled.graphNativeForceDisable, true);
+assert.equal(migratedVersionedManualNativeDisabled.nativeRolloutVersion, 1);
+
 console.log("default-settings tests passed");
diff --git a/tests/graph-persistence.mjs b/tests/graph-persistence.mjs
index 489ef8b..26edb9e 100644
--- a/tests/graph-persistence.mjs
+++ b/tests/graph-persistence.mjs
@@ -3157,6 +3157,7 @@ result = {
     writesBlocked: false,
   });
   harness.runtimeContext.extension_settings[MODULE_NAME] = {
+    nativeRolloutVersion: 1,
     persistUseNativeDelta: false,
   };
   harness.runtimeContext.__scheduleUploadShouldThrow = true;