diff --git a/test/cli/test.js b/test/cli/test.js
index 4dabd937..14b6dc4d 100644
--- a/test/cli/test.js
+++ b/test/cli/test.js
@@ -224,7 +224,13 @@ test('`fusion test` coverage', async t => {
   // Look for something like coverage
   t.ok(response.stdout.includes('Uncovered Line #s'));
 
+  // This file is outside of src and should not be included in coverage
   t.ok(!response.stdout.includes('should-not-count-for-coverage.js'));
+
+  // These files instruments the istanbul ignore annotation and should not be included in coverage
+  t.ok(!response.stdout.includes('istanbul-ignore-coverage.js'));
+  t.ok(!response.stdout.includes('istanbul-ignore-coverage.flow.js'));
+
   t.end();
 });
 
diff --git a/test/fixtures/test-jest-app/src/istanbul-ignore-coverage.flow.js b/test/fixtures/test-jest-app/src/istanbul-ignore-coverage.flow.js
new file mode 100644
index 00000000..aacb0e89
--- /dev/null
+++ b/test/fixtures/test-jest-app/src/istanbul-ignore-coverage.flow.js
@@ -0,0 +1,8 @@
+/* istanbul ignore file */
+// @generated
+// @flow
+// This file should not be present in coverage due to the istanbul ignore file annotation.
+// The `import *` syntax is required for this test case.
+import * as FusionCore from 'fusion-core';
+
+export type Something = FusionCore.Context;
diff --git a/test/fixtures/test-jest-app/src/istanbul-ignore-coverage.js b/test/fixtures/test-jest-app/src/istanbul-ignore-coverage.js
new file mode 100644
index 00000000..8760ab04
--- /dev/null
+++ b/test/fixtures/test-jest-app/src/istanbul-ignore-coverage.js
@@ -0,0 +1,4 @@
+/* istanbul ignore file */
+// @flow
+
+export default function() {}
diff --git a/test/fixtures/test-jest-app/src/main.js b/test/fixtures/test-jest-app/src/main.js
index f94cdac9..cfe7dde6 100644
--- a/test/fixtures/test-jest-app/src/main.js
+++ b/test/fixtures/test-jest-app/src/main.js
@@ -1,5 +1,9 @@
+// @flow
 import {foo} from './foo.js';
+import noop from './istanbul-ignore-coverage.js';
+import type {Something} from './istanbul-ignore-coverage.flow.js';
 
-export default function () {
+export default function() {
+  noop();
   return foo();
 }