diff --git a/plugins/woocommerce/changelog/46217-disable-header-test b/plugins/woocommerce/changelog/46217-disable-header-test
new file mode 100644
index 00000000000..ea8ba596423
--- /dev/null
+++ b/plugins/woocommerce/changelog/46217-disable-header-test
@@ -0,0 +1,4 @@
+Significance: minor
+Type: dev
+
+Skip CYS header test.
\ No newline at end of file
diff --git a/plugins/woocommerce/tests/e2e-pw/tests/customize-store/assembler/header.spec.js b/plugins/woocommerce/tests/e2e-pw/tests/customize-store/assembler/header.spec.js
index cb775c69f6e..c40aae3383f 100644
--- a/plugins/woocommerce/tests/e2e-pw/tests/customize-store/assembler/header.spec.js
+++ b/plugins/woocommerce/tests/e2e-pw/tests/customize-store/assembler/header.spec.js
@@ -105,7 +105,7 @@ test.describe( 'Assembler -> headers', () => {
 		await expect( assembler.getByText( 'Done' ) ).toBeEnabled();
 	} );
 
-	test( 'The selected header should be applied on the frontend', async ( {
+	test.skip( 'The selected header should be applied on the frontend', async ( {
 		assemblerPage,
 		page,
 		baseURL,