diff --git a/cli/run/build.ts b/cli/run/build.ts
index ec2e5abe104..a744bec485e 100644
--- a/cli/run/build.ts
+++ b/cli/run/build.ts
@@ -66,9 +66,10 @@ export default function build(
 				});
 			}
 
-			return Promise.all(outputOptions.map(output => bundle.write(output) as Promise<any>)).then(
-				() => bundle
-			);
+			return outputOptions.reduce(
+				(prev, output) => prev.then(() => bundle.write(output) as Promise<any>),
+				Promise.resolve()
+			).then(() => bundle)
 		})
 		.then((bundle: RollupBuild | null) => {
 			if (!silent) {
diff --git a/test/cli/samples/emit-file-multiple-dirs/.tern-port b/test/cli/samples/emit-file-multiple-dirs/.tern-port
new file mode 100644
index 00000000000..ec6dc4695bc
--- /dev/null
+++ b/test/cli/samples/emit-file-multiple-dirs/.tern-port
@@ -0,0 +1 @@
+46665
\ No newline at end of file
diff --git a/test/cli/samples/emit-file-multiple-dirs/_config.js b/test/cli/samples/emit-file-multiple-dirs/_config.js
new file mode 100644
index 00000000000..34c81bf123b
--- /dev/null
+++ b/test/cli/samples/emit-file-multiple-dirs/_config.js
@@ -0,0 +1,4 @@
+module.exports = {
+	description: 'writes files emitted by plugins in different output dirs',
+	command: 'rollup -c'
+};
diff --git a/test/cli/samples/emit-file-multiple-dirs/_expected/dist1/main.js b/test/cli/samples/emit-file-multiple-dirs/_expected/dist1/main.js
new file mode 100644
index 00000000000..9a6286fb5f8
--- /dev/null
+++ b/test/cli/samples/emit-file-multiple-dirs/_expected/dist1/main.js
@@ -0,0 +1,3 @@
+'use strict';
+
+assert.equal( ANSWER, 42 );
diff --git a/test/cli/samples/emit-file-multiple-dirs/_expected/dist1/myfile b/test/cli/samples/emit-file-multiple-dirs/_expected/dist1/myfile
new file mode 100644
index 00000000000..f2ba8f84ab5
--- /dev/null
+++ b/test/cli/samples/emit-file-multiple-dirs/_expected/dist1/myfile
@@ -0,0 +1 @@
+abc
\ No newline at end of file
diff --git a/test/cli/samples/emit-file-multiple-dirs/_expected/dist2/main.js b/test/cli/samples/emit-file-multiple-dirs/_expected/dist2/main.js
new file mode 100644
index 00000000000..df16c1b06b9
--- /dev/null
+++ b/test/cli/samples/emit-file-multiple-dirs/_expected/dist2/main.js
@@ -0,0 +1 @@
+assert.equal( ANSWER, 42 );
diff --git a/test/cli/samples/emit-file-multiple-dirs/_expected/dist2/myfile b/test/cli/samples/emit-file-multiple-dirs/_expected/dist2/myfile
new file mode 100644
index 00000000000..f2ba8f84ab5
--- /dev/null
+++ b/test/cli/samples/emit-file-multiple-dirs/_expected/dist2/myfile
@@ -0,0 +1 @@
+abc
\ No newline at end of file
diff --git a/test/cli/samples/emit-file-multiple-dirs/main.js b/test/cli/samples/emit-file-multiple-dirs/main.js
new file mode 100644
index 00000000000..df16c1b06b9
--- /dev/null
+++ b/test/cli/samples/emit-file-multiple-dirs/main.js
@@ -0,0 +1 @@
+assert.equal( ANSWER, 42 );
diff --git a/test/cli/samples/emit-file-multiple-dirs/rollup.config.js b/test/cli/samples/emit-file-multiple-dirs/rollup.config.js
new file mode 100644
index 00000000000..5131be2d2f9
--- /dev/null
+++ b/test/cli/samples/emit-file-multiple-dirs/rollup.config.js
@@ -0,0 +1,18 @@
+export default {
+  input: "main.js",
+  output: [
+    {
+      dir: "_actual/dist1",
+      format: "cjs"
+    },
+    {
+      dir: "_actual/dist2",
+      format: "esm"
+    }
+  ],
+  plugins: [{
+    generateBundle() {
+      this.emitFile({type: "asset", fileName: "myfile", source: "abc"})
+    }
+  }]
+}