diff --git a/packages/scripts/CHANGELOG.md b/packages/scripts/CHANGELOG.md
index f3f508217472b6..6556554750ceaf 100644
--- a/packages/scripts/CHANGELOG.md
+++ b/packages/scripts/CHANGELOG.md
@@ -6,6 +6,7 @@
 
 -   Add the `stylelint-scss` dependency, a peer of `@wordpress/stylelint-config` ([#83765](https://github.com/WordPress/gutenberg/pull/83765)).
 -   `build`, `start` and `lint-pkg-json`: Resolve the default browserslist and npm-package-json-lint configs when dependencies are not hoisted to the project root (npm `install-strategy=linked`, pnpm). `lint-pkg-json` now defaults to `config/npmpackagejsonlint.js`; `config/npmpackagejsonlint.json` stays for projects that reference it ([#83902](https://github.com/WordPress/gutenberg/pull/83902)).
+-   `lint-js`, `lint-style` and `lint-md-docs`: a file passed right after `--fix` is now treated as a file instead of that flag's value, so only the listed files get processed. Same for `--require-pragma` in `format` ([#83521](https://github.com/WordPress/gutenberg/pull/83521)).
 
 ## 36.0.0 (2026-09-23)
 
diff --git a/packages/scripts/utils/cli.js b/packages/scripts/utils/cli.js
index 71a67632cd46dd..bdb848a1c1b53d 100644
--- a/packages/scripts/utils/cli.js
+++ b/packages/scripts/utils/cli.js
@@ -14,7 +14,19 @@ const getArgFromCLI = ( arg ) => {
 
 const hasArgInCLI = ( arg ) => getArgFromCLI( arg ) !== undefined;
 
-const getFileArgsFromCLI = () => minimist( getArgsFromCLI() )._;
+// Flags that never take a value, so `--fix file.js` isn't read as `--fix=file.js`.
+// stylelint's `--fix` does take an optional mode though, so drop that first.
+const getFileArgsFromCLI = () => {
+	const args = getArgsFromCLI().filter(
+		( arg, index, all ) =>
+			! (
+				all[ index - 1 ] === '--fix' &&
+				[ 'strict', 'lax' ].includes( arg )
+			)
+	);
+
+	return minimist( args, { boolean: [ 'fix', 'require-pragma' ] } )._;
+};
 
 const getNodeArgsFromCLI = () => {
 	const args = getArgsFromCLI();
diff --git a/packages/scripts/utils/test/index.js b/packages/scripts/utils/test/index.js
index 6f60afb0b9e1cd..2f8f8775e59149 100644
--- a/packages/scripts/utils/test/index.js
+++ b/packages/scripts/utils/test/index.js
@@ -26,6 +26,7 @@ const fromConfigRootMock = vi.spyOn( fileUtils, 'fromConfigRoot' );
 let crossSpawnMock = vi.spyOn( crossSpawn, 'sync' );
 const {
 	hasArgInCLI,
+	hasFileArgInCLI,
 	hasProjectFile,
 	getWebpackArgs,
 	spawnScript,
@@ -66,6 +67,39 @@ describe( 'utils', () => {
 		} );
 	} );
 
+	describe( 'hasFileArgInCLI', () => {
+		afterAll( () => {
+			getArgsFromCLIMock.mockReset();
+		} );
+
+		test( 'should treat a file after --fix as a file arg', () => {
+			getArgsFromCLIMock.mockReturnValue( [ '--fix', 'style.scss' ] );
+
+			expect( hasFileArgInCLI() ).toBe( true );
+		} );
+
+		test( 'should treat a file after --require-pragma as a file arg', () => {
+			getArgsFromCLIMock.mockReturnValue( [
+				'--require-pragma',
+				'index.js',
+			] );
+
+			expect( hasFileArgInCLI() ).toBe( true );
+		} );
+
+		test( 'should not treat the stylelint --fix mode as a file arg', () => {
+			getArgsFromCLIMock.mockReturnValue( [ '--fix', 'lax' ] );
+
+			expect( hasFileArgInCLI() ).toBe( false );
+		} );
+
+		test( 'should not treat the value of --config as a file arg', () => {
+			getArgsFromCLIMock.mockReturnValue( [ '--config', 'custom.json' ] );
+
+			expect( hasFileArgInCLI() ).toBe( false );
+		} );
+	} );
+
 	describe( 'hasProjectFile', () => {
 		test( 'should return false for the current directory and unknown file', () => {
 			getPackagePathMock.mockReturnValueOnce( currentDirectory );