diff --git a/pkg/dart2native/lib/dart2native.dart b/pkg/dart2native/lib/dart2native.dart
index 341ba54887d..621911c7e1f 100644
--- a/pkg/dart2native/lib/dart2native.dart
+++ b/pkg/dart2native/lib/dart2native.dart
@@ -107,7 +107,7 @@ Future<ProcessResult> markExecutable(String outputFile) {
 /// to static functions annotated with `@ResourceIdentifier` will be collected.
 Future<ProcessResult> generateKernelHelper({
   required String dartaotruntime,
-  required String sourceFile,
+  String? sourceFile,
   required String kernelFile,
   String? packages,
   List<String> defines = const [],
@@ -140,7 +140,7 @@ Future<ProcessResult> generateKernelHelper({
     if (resourcesFile != null) '--resources-file=$resourcesFile',
     '--output=$kernelFile',
     ...extraGenKernelOptions,
-    sourceFile,
+    if (sourceFile != null) sourceFile,
   ];
   return Process.run(dartaotruntime, args);
 }
diff --git a/pkg/dart2native/lib/generate.dart b/pkg/dart2native/lib/generate.dart
index b2f86a7995d..5304ab7dec6 100644
--- a/pkg/dart2native/lib/generate.dart
+++ b/pkg/dart2native/lib/generate.dart
@@ -78,7 +78,7 @@ Future<void> generateNative({
   List<String> extraOptions = const [],
 }) async {
   final tempDir = Directory.systemTemp.createTempSync();
-  final kernelFile = path.join(tempDir.path, 'kernel.dill');
+  final programKernelFile = path.join(tempDir.path, 'program.dill');
 
   final sourcePath = _normalize(sourceFile)!;
   final sourceWithoutDartOrDill = sourcePath.replaceFirst(
@@ -112,7 +112,7 @@ Future<void> generateNative({
     final kernelResult = await generateKernelHelper(
       dartaotruntime: dartaotruntime,
       sourceFile: sourcePath,
-      kernelFile: kernelFile,
+      kernelFile: programKernelFile,
       packages: packages,
       defines: defines,
       fromDill: await isKernelFile(sourcePath),
@@ -124,7 +124,6 @@ Future<void> generateNative({
         '--verbosity=$verbosity',
         '--${soundNullSafety ? '' : 'no-'}sound-null-safety',
       ],
-      nativeAssets: nativeAssets,
       resourcesFile: resourcesFile,
       aot: true,
     );
@@ -132,6 +131,46 @@ Future<void> generateNative({
     if (kernelResult.exitCode != 0) {
       throw StateError('Generating AOT kernel dill failed!');
     }
+    String kernelFile;
+    if (nativeAssets == null) {
+      kernelFile = programKernelFile;
+    } else {
+      // TODO(dacoharkes): This method will need to be split in two parts. Then
+      // the link hooks can be run in between those two parts.
+      final nativeAssetsDillFile =
+          path.join(tempDir.path, 'native_assets.dill');
+      final kernelResult = await generateKernelHelper(
+        dartaotruntime: dartaotruntime,
+        kernelFile: nativeAssetsDillFile,
+        packages: packages,
+        defines: defines,
+        enableAsserts: enableAsserts,
+        enableExperiment: enableExperiment,
+        targetOS: targetOS,
+        extraGenKernelOptions: [
+          '--invocation-modes=compile',
+          '--verbosity=$verbosity',
+          '--${soundNullSafety ? '' : 'no-'}sound-null-safety',
+        ],
+        nativeAssets: nativeAssets,
+        aot: true,
+      );
+      await _forwardOutput(kernelResult);
+      if (kernelResult.exitCode != 0) {
+        throw StateError('Generating AOT kernel dill failed!');
+      }
+      kernelFile = path.join(tempDir.path, 'kernel.dill');
+      final programKernelBytes = await File(programKernelFile).readAsBytes();
+      final nativeAssetKernelBytes =
+          await File(nativeAssetsDillFile).readAsBytes();
+      await File(kernelFile).writeAsBytes(
+        [
+          ...programKernelBytes,
+          ...nativeAssetKernelBytes,
+        ],
+        flush: true,
+      );
+    }
 
     final extraAotOptions = <String>[
       if (!soundNullSafety) '--no-sound-null-safety',