diff --git a/.github/workflows/dart.yaml b/.github/workflows/dart.yaml
index fafce3bdb..c285821e2 100644
--- a/.github/workflows/dart.yaml
+++ b/.github/workflows/dart.yaml
@@ -23,7 +23,7 @@ jobs:
         sdk: [stable, dev]
         package: [native_assets_builder, native_assets_cli, native_toolchain_c]
         # Breaking changes temporarily break the example run on the Dart SDK until native_assets_builder is rolled into the Dart SDK dev build.
-        breaking-change: [false]
+        breaking-change: [true]
         exclude:
           # Only run analyze against dev on one host.
           - os: macos
diff --git a/pkgs/native_assets_builder/CHANGELOG.md b/pkgs/native_assets_builder/CHANGELOG.md
index 191357077..5700d5d27 100644
--- a/pkgs/native_assets_builder/CHANGELOG.md
+++ b/pkgs/native_assets_builder/CHANGELOG.md
@@ -1,3 +1,8 @@
+## 0.3.0
+
+- Bump `package:native_assets_cli` to 0.3.0
+  ([#142](https://github.com/dart-lang/native/issues/142)).
+
 ## 0.2.3
 
 - Quicker build planning for 0 or 1 packages with native assets
diff --git a/pkgs/native_assets_builder/lib/src/build_runner/build_runner.dart b/pkgs/native_assets_builder/lib/src/build_runner/build_runner.dart
index d312db754..1c1544648 100644
--- a/pkgs/native_assets_builder/lib/src/build_runner/build_runner.dart
+++ b/pkgs/native_assets_builder/lib/src/build_runner/build_runner.dart
@@ -84,6 +84,7 @@ class NativeAssetsBuildRunner {
         targetMetadata: metadata,
       );
       final config = await _cliConfig(
+        packageName: package.name,
         packageRoot: packageLayout.packageRoot(package.name),
         target: target,
         buildMode: buildMode,
@@ -310,6 +311,7 @@ build_output.yaml contained a format error.
   }
 
   static Future<BuildConfig> _cliConfig({
+    required String packageName,
     required Uri packageRoot,
     required Target target,
     IOSSdk? targetIOSSdk,
@@ -321,6 +323,7 @@ build_output.yaml contained a format error.
     DependencyMetadata? dependencyMetadata,
   }) async {
     final buildDirName = BuildConfig.checksum(
+      packageName: packageName,
       packageRoot: packageRoot,
       targetOs: target.os,
       targetArchitecture: target.architecture,
@@ -339,6 +342,7 @@ build_output.yaml contained a format error.
     }
     return BuildConfig(
       outDir: outDirUri,
+      packageName: packageName,
       packageRoot: packageRoot,
       targetOs: target.os,
       targetArchitecture: target.architecture,
@@ -366,6 +370,7 @@ build_output.yaml contained a format error.
     }
     return BuildConfig.dryRun(
       outDir: outDirUri,
+      packageName: packageName,
       packageRoot: packageRoot,
       targetOs: targetOs,
       linkModePreference: linkMode,
@@ -470,9 +475,4 @@ extension on DateTime {
           millisecondsSinceEpoch % Duration(seconds: 1).inMilliseconds);
 }
 
-extension on BuildConfig {
-  String get packageName =>
-      packageRoot.pathSegments.lastWhere((e) => e.isNotEmpty);
-}
-
 int _uriCompare(Uri u1, Uri u2) => u1.toString().compareTo(u2.toString());
diff --git a/pkgs/native_assets_builder/pubspec.yaml b/pkgs/native_assets_builder/pubspec.yaml
index 14695419f..ad0e45afb 100644
--- a/pkgs/native_assets_builder/pubspec.yaml
+++ b/pkgs/native_assets_builder/pubspec.yaml
@@ -1,7 +1,7 @@
 name: native_assets_builder
 description: >-
   This package is the backend that invokes top-level `build.dart` scripts.
-version: 0.2.3
+version: 0.3.0
 repository: https://github.com/dart-lang/native/tree/main/pkgs/native_assets_builder
 
 environment:
@@ -10,7 +10,7 @@ environment:
 dependencies:
   graphs: ^2.3.1
   logging: ^1.2.0
-  native_assets_cli: ^0.2.0
+  native_assets_cli: ^0.3.0
   package_config: ^2.1.0
 
 dev_dependencies:
diff --git a/pkgs/native_assets_builder/test/build_runner/build_runner_asset_id_test.dart b/pkgs/native_assets_builder/test/build_runner/build_runner_asset_id_test.dart
index 95ba8def7..19ad31922 100644
--- a/pkgs/native_assets_builder/test/build_runner/build_runner_asset_id_test.dart
+++ b/pkgs/native_assets_builder/test/build_runner/build_runner_asset_id_test.dart
@@ -40,4 +40,28 @@ void main() async {
       }
     });
   });
+
+  test('right asset id but other directory', timeout: longTimeout, () async {
+    await inTempDir((tempUri) async {
+      final packageUri = tempUri.resolve('different_root_dir/');
+      await copyTestProjects(
+        sourceUri: testDataUri.resolve('native_add/'),
+        targetUri: packageUri,
+      );
+
+      await runPubGet(
+        workingDirectory: packageUri,
+        logger: logger,
+      );
+
+      {
+        final result = await build(
+          packageUri,
+          logger,
+          dartExecutable,
+        );
+        expect(result.success, true);
+      }
+    });
+  });
 }
diff --git a/pkgs/native_assets_builder/test/data/cyclic_package_1/pubspec.yaml b/pkgs/native_assets_builder/test/data/cyclic_package_1/pubspec.yaml
index 62e9e627c..48b20d548 100644
--- a/pkgs/native_assets_builder/test/data/cyclic_package_1/pubspec.yaml
+++ b/pkgs/native_assets_builder/test/data/cyclic_package_1/pubspec.yaml
@@ -11,7 +11,7 @@ dependencies:
   cli_config: ^0.1.1
   cyclic_package_2:
     path: ../cyclic_package_2
-  native_assets_cli: ^0.2.0
+  native_assets_cli: ^0.3.0
   yaml: ^3.1.1
   yaml_edit: ^2.1.0
 
diff --git a/pkgs/native_assets_builder/test/data/cyclic_package_2/pubspec.yaml b/pkgs/native_assets_builder/test/data/cyclic_package_2/pubspec.yaml
index 102844e3a..639c8e50c 100644
--- a/pkgs/native_assets_builder/test/data/cyclic_package_2/pubspec.yaml
+++ b/pkgs/native_assets_builder/test/data/cyclic_package_2/pubspec.yaml
@@ -11,7 +11,7 @@ dependencies:
   cli_config: ^0.1.1
   cyclic_package_1:
     path: ../cyclic_package_1
-  native_assets_cli: ^0.2.0
+  native_assets_cli: ^0.3.0
   yaml: ^3.1.1
   yaml_edit: ^2.1.0
 
diff --git a/pkgs/native_assets_builder/test/data/native_add/manifest.yaml b/pkgs/native_assets_builder/test/data/native_add/manifest.yaml
new file mode 100644
index 000000000..e922db8c1
--- /dev/null
+++ b/pkgs/native_assets_builder/test/data/native_add/manifest.yaml
@@ -0,0 +1,9 @@
+- build.dart
+- ffigen.yaml
+- lib/native_add.dart
+- lib/src/native_add_bindings_generated.dart
+- lib/src/native_add.dart
+- pubspec.yaml
+- src/native_add.c
+- src/native_add.h
+- test/native_add_test.dart
diff --git a/pkgs/native_assets_builder/test/data/native_add/pubspec.yaml b/pkgs/native_assets_builder/test/data/native_add/pubspec.yaml
index 5a09f24fe..460c20491 100644
--- a/pkgs/native_assets_builder/test/data/native_add/pubspec.yaml
+++ b/pkgs/native_assets_builder/test/data/native_add/pubspec.yaml
@@ -10,8 +10,8 @@ environment:
 dependencies:
   cli_config: ^0.1.1
   logging: ^1.1.1
-  native_assets_cli: ^0.2.0
-  native_toolchain_c: ^0.2.2
+  native_assets_cli: ^0.3.0
+  native_toolchain_c: ^0.3.0
 
 dev_dependencies:
   ffigen: ^8.0.2
diff --git a/pkgs/native_assets_builder/test/data/native_add_add_source/pubspec.yaml b/pkgs/native_assets_builder/test/data/native_add_add_source/pubspec.yaml
index 5a09f24fe..460c20491 100644
--- a/pkgs/native_assets_builder/test/data/native_add_add_source/pubspec.yaml
+++ b/pkgs/native_assets_builder/test/data/native_add_add_source/pubspec.yaml
@@ -10,8 +10,8 @@ environment:
 dependencies:
   cli_config: ^0.1.1
   logging: ^1.1.1
-  native_assets_cli: ^0.2.0
-  native_toolchain_c: ^0.2.2
+  native_assets_cli: ^0.3.0
+  native_toolchain_c: ^0.3.0
 
 dev_dependencies:
   ffigen: ^8.0.2
diff --git a/pkgs/native_assets_builder/test/data/native_subtract/pubspec.yaml b/pkgs/native_assets_builder/test/data/native_subtract/pubspec.yaml
index f1eea1404..25b36841b 100644
--- a/pkgs/native_assets_builder/test/data/native_subtract/pubspec.yaml
+++ b/pkgs/native_assets_builder/test/data/native_subtract/pubspec.yaml
@@ -10,8 +10,8 @@ environment:
 dependencies:
   cli_config: ^0.1.1
   logging: ^1.1.1
-  native_assets_cli: ^0.2.0
-  native_toolchain_c: ^0.2.2
+  native_assets_cli: ^0.3.0
+  native_toolchain_c: ^0.3.0
 
 dev_dependencies:
   ffigen: ^8.0.2
diff --git a/pkgs/native_assets_builder/test/data/package_reading_metadata/pubspec.yaml b/pkgs/native_assets_builder/test/data/package_reading_metadata/pubspec.yaml
index c5c92667a..b475e36dc 100644
--- a/pkgs/native_assets_builder/test/data/package_reading_metadata/pubspec.yaml
+++ b/pkgs/native_assets_builder/test/data/package_reading_metadata/pubspec.yaml
@@ -9,7 +9,7 @@ environment:
 
 dependencies:
   cli_config: ^0.1.1
-  native_assets_cli: ^0.2.0
+  native_assets_cli: ^0.3.0
   package_with_metadata:
     path: ../package_with_metadata/
   yaml: ^3.1.1
diff --git a/pkgs/native_assets_builder/test/data/package_with_metadata/pubspec.yaml b/pkgs/native_assets_builder/test/data/package_with_metadata/pubspec.yaml
index 579151723..3dc55948d 100644
--- a/pkgs/native_assets_builder/test/data/package_with_metadata/pubspec.yaml
+++ b/pkgs/native_assets_builder/test/data/package_with_metadata/pubspec.yaml
@@ -9,7 +9,7 @@ environment:
 
 dependencies:
   cli_config: ^0.1.1
-  native_assets_cli: ^0.2.0
+  native_assets_cli: ^0.3.0
   yaml: ^3.1.1
   yaml_edit: ^2.1.0
 
diff --git a/pkgs/native_assets_builder/test/data/wrong_build_output/pubspec.yaml b/pkgs/native_assets_builder/test/data/wrong_build_output/pubspec.yaml
index 51671865a..a9822faec 100644
--- a/pkgs/native_assets_builder/test/data/wrong_build_output/pubspec.yaml
+++ b/pkgs/native_assets_builder/test/data/wrong_build_output/pubspec.yaml
@@ -9,7 +9,7 @@ environment:
 
 dependencies:
   cli_config: ^0.1.1
-  native_assets_cli: ^0.2.0
+  native_assets_cli: ^0.3.0
   yaml: ^3.1.1
   yaml_edit: ^2.1.0
 
diff --git a/pkgs/native_assets_builder/test/data/wrong_build_output_2/pubspec.yaml b/pkgs/native_assets_builder/test/data/wrong_build_output_2/pubspec.yaml
index 7afbf3450..863c61ae9 100644
--- a/pkgs/native_assets_builder/test/data/wrong_build_output_2/pubspec.yaml
+++ b/pkgs/native_assets_builder/test/data/wrong_build_output_2/pubspec.yaml
@@ -9,7 +9,7 @@ environment:
 
 dependencies:
   cli_config: ^0.1.1
-  native_assets_cli: ^0.2.0
+  native_assets_cli: ^0.3.0
   yaml: ^3.1.1
   yaml_edit: ^2.1.0
 
diff --git a/pkgs/native_assets_builder/test/data/wrong_build_output_3/pubspec.yaml b/pkgs/native_assets_builder/test/data/wrong_build_output_3/pubspec.yaml
index 749a89ed2..c76a14a73 100644
--- a/pkgs/native_assets_builder/test/data/wrong_build_output_3/pubspec.yaml
+++ b/pkgs/native_assets_builder/test/data/wrong_build_output_3/pubspec.yaml
@@ -9,7 +9,7 @@ environment:
 
 dependencies:
   cli_config: ^0.1.1
-  native_assets_cli: ^0.2.0
+  native_assets_cli: ^0.3.0
   yaml: ^3.1.1
   yaml_edit: ^2.1.0
 
diff --git a/pkgs/native_assets_builder/test/data/wrong_namespace_asset/pubspec.yaml b/pkgs/native_assets_builder/test/data/wrong_namespace_asset/pubspec.yaml
index 5b255aba6..4fffb5a8b 100644
--- a/pkgs/native_assets_builder/test/data/wrong_namespace_asset/pubspec.yaml
+++ b/pkgs/native_assets_builder/test/data/wrong_namespace_asset/pubspec.yaml
@@ -9,7 +9,7 @@ environment:
 
 dependencies:
   cli_config: ^0.1.1
-  native_assets_cli: ^0.2.0
+  native_assets_cli: ^0.3.0
   yaml: ^3.1.1
   yaml_edit: ^2.1.0
 
diff --git a/pkgs/native_assets_cli/example/native_add_library/pubspec.yaml b/pkgs/native_assets_cli/example/native_add_library/pubspec.yaml
index 5405e1e97..05e72decf 100644
--- a/pkgs/native_assets_cli/example/native_add_library/pubspec.yaml
+++ b/pkgs/native_assets_cli/example/native_add_library/pubspec.yaml
@@ -11,8 +11,8 @@ environment:
 dependencies:
   cli_config: ^0.1.1
   logging: ^1.1.1
-  native_assets_cli: ^0.2.0
-  native_toolchain_c: ^0.2.2
+  native_assets_cli: ^0.3.0
+  native_toolchain_c: ^0.3.0
 
 dev_dependencies:
   ffigen: ^8.0.2
diff --git a/pkgs/native_assets_cli/test/example/native_add_library_test.dart b/pkgs/native_assets_cli/test/example/native_add_library_test.dart
index 286eff61a..34da58dc9 100644
--- a/pkgs/native_assets_cli/test/example/native_add_library_test.dart
+++ b/pkgs/native_assets_cli/test/example/native_add_library_test.dart
@@ -17,6 +17,7 @@ import '../helpers.dart';
 
 void main() async {
   late Uri tempUri;
+  const name = 'native_add_library';
 
   setUp(() async {
     tempUri = (await Directory.systemTemp.createTemp()).uri;
@@ -31,7 +32,7 @@ void main() async {
     test('native_add build$testSuffix', () async {
       final testTempUri = tempUri.resolve('test1/');
       await Directory.fromUri(testTempUri).create();
-      final testPackageUri = packageUri.resolve('example/native_add_library/');
+      final testPackageUri = packageUri.resolve('example/$name/');
       final dartUri = Uri.file(Platform.resolvedExecutable);
 
       final processResult = await Process.run(
@@ -39,6 +40,7 @@ void main() async {
         [
           'build.dart',
           '-Dout_dir=${tempUri.toFilePath()}',
+          '-Dpackage_name=$name',
           '-Dpackage_root=${testPackageUri.toFilePath()}',
           '-Dtarget_os=${OS.current}',
           '-Dversion=${BuildConfig.version}',
@@ -80,7 +82,7 @@ void main() async {
         expect(
           dependencies.dependencies,
           [
-            testPackageUri.resolve('src/native_add_library.c'),
+            testPackageUri.resolve('src/$name.c'),
             testPackageUri.resolve('build.dart'),
           ],
         );