diff --git a/lib/xo.ts b/lib/xo.ts
index ea4bc770..08565f6c 100644
--- a/lib/xo.ts
+++ b/lib/xo.ts
@@ -166,8 +166,7 @@ export class Xo {
 
 		this.xoConfig = [
 			this.baseXoConfig,
-			// Ensure resolved options do not mutate between runs
-			...structuredClone(flatOptions),
+			...flatOptions,
 		];
 
 		// Split off the TS rules in a special case, so that you won't get errors
@@ -210,13 +209,16 @@ export class Xo {
 			// Apply TS rules to all files
 			tsConfig.files = [tsFilesGlob];
 
-			// Set the other rules to the original config
-			config.rules = Object.fromEntries(otherRules);
+			const otherConfig: XoConfigItem = {
+				...config,
+				// Set the other rules to the original config
+				rules: Object.fromEntries(otherRules),
+			};
 
 			// These rules should still apply to all files
-			config.files = [allFilesGlob];
+			otherConfig.files = [allFilesGlob];
 
-			return [tsConfig, config];
+			return [tsConfig, otherConfig];
 		});
 
 		this.prettier = this.xoConfig.some(config => config.prettier);
diff --git a/package.json b/package.json
index c1d50057..28ada28a 100644
--- a/package.json
+++ b/package.json
@@ -1,6 +1,6 @@
 {
 	"name": "xo",
-	"version": "1.0.3",
+	"version": "1.0.4",
 	"description": "JavaScript/TypeScript linter (ESLint wrapper) with great defaults",
 	"license": "MIT",
 	"repository": "xojs/xo",
@@ -25,7 +25,7 @@
 		"build:watch": "tsc --watch",
 		"clean": "rm -rf dist",
 		"lint": "node dist/cli.js",
-		"prepare": "npm run build",
+		"prepare": "npm run build && husky",
 		"release": "np",
 		"test": "npm run build && npm run lint && npm run test:setup && ava",
 		"test:setup": "node scripts/setup-tests"
diff --git a/test/xo/lint-text.test.ts b/test/xo/lint-text.test.ts
index de514f04..5c5387a8 100644
--- a/test/xo/lint-text.test.ts
+++ b/test/xo/lint-text.test.ts
@@ -404,3 +404,50 @@ test('lint-text can be ran multiple times in a row with top level typescript rul
 	t.is(results3[0]?.errorCount, 0);
 	t.true(results3[0]?.messages?.length === 0);
 });
+
+test('config with custom plugin', async t => {
+	const {cwd} = t.context;
+
+	await fs.writeFile(
+		path.join(cwd, 'xo.config.js'),
+		dedent`
+			const testRule = {
+				create(context) {
+					return {
+						Program(node) {
+							context.report({
+								node,
+								message: 'Custom error',
+							});
+						},
+					};
+				},
+			};
+
+			export default [
+				{
+					plugins: {
+						'test-plugin': {
+							rules: {
+								'test-rule': testRule,
+							},
+						},
+					},
+					rules: {
+						'test-plugin/test-rule': 'error',
+					},
+				},
+			];\n
+		`,
+		'utf8',
+	);
+
+	const {results} = await Xo.lintText(dedent`console.log('hello');\n`, {
+		cwd,
+		filePath: path.join(cwd, 'test.js'),
+	});
+
+	t.is(results[0]?.messages?.length, 1);
+	t.is(results[0]?.messages[0]?.ruleId, 'test-plugin/test-rule');
+	t.is(results[0]?.messages[0]?.message, 'Custom error');
+});