diff --git a/README.md b/README.md
index 10a4bb4..39bc4e6 100644
--- a/README.md
+++ b/README.md
@@ -42,6 +42,7 @@ matrixai-lint --fix
 | `--user-config`          | Uses detected `eslint.config.[js,mjs,cjs,ts]` from the project root if found |
 | `--eslint-config <path>` | Explicitly use a custom ESLint config file                                   |
 | `--eslint <targets>`     | ESLint targets (files, roots, or globs); implies ESLint domain selection     |
+| `--markdown <targets>`   | Markdown targets (files, roots, or globs); implies markdown domain selection |
 | `--shell <targets>`      | Shell targets (files, roots, or globs); implies shell domain selection       |
 | `--domain <id...>`       | Run only selected domains (`eslint`, `shell`, `markdown`)                    |
 | `--skip-domain <id...>`  | Skip selected domains (`eslint`, `shell`, `markdown`)                        |
@@ -58,6 +59,9 @@ Domain selection behavior:
   - `--eslint ...` runs ESLint only.
   - `--shell ...` runs shell only.
   - Passing both runs both.
+- Passing `--markdown` implies markdown domain selection.
+  - `--markdown ...` runs markdown only.
+  - Combined with other target flags, only those targeted domains run.
 - `shellcheck` is optional only for default auto-run shell execution.
   - If shell is explicitly requested (`--shell ...` or `--domain shell`),
     missing `shellcheck` is a failure.
@@ -65,6 +69,10 @@ Domain selection behavior:
   - Directories are used as roots.
   - File paths and glob patterns are reduced to search roots, then `*.sh` files
     are discovered under those roots.
+- `--markdown` accepts target paths and glob patterns.
+  - Directories are used as roots.
+  - File paths and glob patterns are reduced to search roots, then `*.md` /
+    `*.mdx` files are discovered under those roots.
 
 #### Targeted workflows
 
@@ -86,6 +94,12 @@ Domain selection behavior:
   matrixai-lint --domain markdown
   ```
 
+- Markdown only under selected roots:
+
+  ```sh
+  matrixai-lint --markdown standards templates README.md
+  ```
+
 - Mixed scoped run (ESLint + shell only):
 
   ```sh
@@ -99,6 +113,7 @@ matrixai-lint --fix
 matrixai-lint --user-config
 matrixai-lint --eslint-config ./eslint.config.js --fix
 matrixai-lint --eslint "src/**/*.{ts,tsx}" --shell scripts
+matrixai-lint --markdown standards templates README.md
 matrixai-lint --domain eslint markdown
 matrixai-lint --skip-domain markdown
 matrixai-lint --list-domains
diff --git a/package-lock.json b/package-lock.json
index 4cf2ac2..cdd741e 100644
--- a/package-lock.json
+++ b/package-lock.json
@@ -1,12 +1,12 @@
 {
   "name": "@matrixai/lint",
-  "version": "0.3.0",
+  "version": "0.4.0",
   "lockfileVersion": 3,
   "requires": true,
   "packages": {
     "": {
       "name": "@matrixai/lint",
-      "version": "0.3.0",
+      "version": "0.4.0",
       "license": "Apache-2.0",
       "dependencies": {
         "@eslint/compat": "^1.2.5",
diff --git a/package.json b/package.json
index 492d85d..9a0c8d3 100644
--- a/package.json
+++ b/package.json
@@ -1,12 +1,12 @@
 {
   "name": "@matrixai/lint",
-  "version": "0.3.0",
+  "version": "0.4.0",
   "author": "Roger Qiu",
   "description": "Org wide custom eslint rules",
   "license": "Apache-2.0",
   "repository": {
     "type": "git",
-    "url": "https://github.com/MatrixAI/js-eslint.git"
+    "url": "git+https://github.com/MatrixAI/js-eslint.git"
   },
   "type": "module",
   "exports": {
@@ -29,7 +29,7 @@
     "#*": "./dist/*"
   },
   "bin": {
-    "matrixai-lint": "./dist/bin/lint.js"
+    "matrixai-lint": "dist/bin/lint.js"
   },
   "scripts": {
     "prepare": "tsc -p ./tsconfig.build.json",
diff --git a/src/bin/lint.ts b/src/bin/lint.ts
index 8f9b9a4..43c81e1 100644
--- a/src/bin/lint.ts
+++ b/src/bin/lint.ts
@@ -44,6 +44,7 @@ program
   )
   .option('--eslint-config <path>', 'Path to explicit ESLint config file')
   .option('--eslint <target...>', 'ESLint targets (files, roots, or globs)')
+  .option('--markdown <target...>', 'Markdown targets (files, roots, or globs)')
   .option(
     '--shell <target...>',
     'Shell targets (files, roots, or globs) used to derive shellcheck search roots',
@@ -139,6 +140,7 @@ async function main(argv = process.argv) {
   const explain = Boolean(options.explain);
 
   const eslintPatterns: string[] | undefined = options.eslint;
+  const markdownPatterns: string[] | undefined = options.markdown;
   const shellPatterns: string[] | undefined = options.shell;
   const { selectedDomains, explicitlyRequestedDomains, selectionSources } =
     resolveDomainSelection(options);
@@ -197,6 +199,7 @@ async function main(argv = process.argv) {
       chosenConfig,
       isConfigValid,
       eslintPatterns,
+      markdownPatterns,
       shellPatterns,
     },
   });
@@ -214,6 +217,7 @@ async function main(argv = process.argv) {
       chosenConfig,
       isConfigValid,
       eslintPatterns,
+      markdownPatterns,
       shellPatterns,
     },
   });
diff --git a/src/domains/engine.ts b/src/domains/engine.ts
index 76ab4a3..fd6d5de 100644
--- a/src/domains/engine.ts
+++ b/src/domains/engine.ts
@@ -8,6 +8,7 @@ type LintDomainEngineContext = {
   isConfigValid: boolean;
   eslintPatterns?: string[];
   shellPatterns?: string[];
+  markdownPatterns?: string[];
 };
 
 type LintDomainAvailabilityKind = 'required' | 'optional';
diff --git a/src/domains/index.ts b/src/domains/index.ts
index 3c85369..90b806a 100644
--- a/src/domains/index.ts
+++ b/src/domains/index.ts
@@ -29,6 +29,7 @@ function resolveDomainSelection(options: CLIOptions): {
   const hasDomainSelectors = domainFlags.length > 0 || skipDomains.size > 0;
   const hasExplicitESLintTargets = (options.eslint?.length ?? 0) > 0;
   const hasExplicitShellTargets = (options.shell?.length ?? 0) > 0;
+  const hasExplicitMarkdownTargets = (options.markdown?.length ?? 0) > 0;
   const explicitlyRequestedDomains = new Set<LintDomain>(domainFlags);
   const selectionSources = new Map<LintDomain, LintDomainSelectionSource>();
 
@@ -38,6 +39,9 @@ function resolveDomainSelection(options: CLIOptions): {
   if (hasExplicitShellTargets) {
     explicitlyRequestedDomains.add('shell');
   }
+  if (hasExplicitMarkdownTargets) {
+    explicitlyRequestedDomains.add('markdown');
+  }
 
   let selectedDomains: Set<LintDomain>;
 
@@ -48,7 +52,9 @@ function resolveDomainSelection(options: CLIOptions): {
     }
   } else if (
     !hasDomainSelectors &&
-    (hasExplicitESLintTargets || hasExplicitShellTargets)
+    (hasExplicitESLintTargets ||
+      hasExplicitShellTargets ||
+      hasExplicitMarkdownTargets)
   ) {
     selectedDomains = new Set<LintDomain>();
     if (hasExplicitESLintTargets) {
@@ -59,6 +65,10 @@ function resolveDomainSelection(options: CLIOptions): {
       selectedDomains.add('shell');
       selectionSources.set('shell', 'target-flag');
     }
+    if (hasExplicitMarkdownTargets) {
+      selectedDomains.add('markdown');
+      selectionSources.set('markdown', 'target-flag');
+    }
   } else {
     selectedDomains = new Set<LintDomain>(LINT_DOMAINS);
     for (const domain of LINT_DOMAINS) {
diff --git a/src/domains/markdown.ts b/src/domains/markdown.ts
index 52f5cd0..731f517 100644
--- a/src/domains/markdown.ts
+++ b/src/domains/markdown.ts
@@ -46,8 +46,11 @@ function createMarkdownDomainPlugin({
   return {
     domain: 'markdown',
     description: 'Format and check Markdown/MDX files with Prettier.',
-    detect: () => {
-      const searchPatterns = DEFAULT_MARKDOWN_SEARCH_ROOTS;
+    detect: ({ markdownPatterns }) => {
+      const searchPatterns =
+        markdownPatterns != null && markdownPatterns.length > 0
+          ? markdownPatterns
+          : DEFAULT_MARKDOWN_SEARCH_ROOTS;
       const searchRoots = resolveSearchRootsFromPatterns(searchPatterns);
       const matchedFiles = collectMarkdownFilesFromScope(searchRoots);
 
diff --git a/src/types.ts b/src/types.ts
index 07a7207..619f3d1 100644
--- a/src/types.ts
+++ b/src/types.ts
@@ -35,6 +35,7 @@ type CLIOptions = {
   eslintConfig?: string;
   eslint?: string[];
   shell?: string[];
+  markdown?: string[];
   domain?: LintDomain[];
   skipDomain?: LintDomain[];
   listDomains?: boolean;
diff --git a/tests/bin/lint.test.ts b/tests/bin/lint.test.ts
index e5b4526..551a616 100644
--- a/tests/bin/lint.test.ts
+++ b/tests/bin/lint.test.ts
@@ -96,6 +96,31 @@ describe('matrixai-lint CLI domain semantics', () => {
     expect(prettierCalls).toHaveLength(0);
   });
 
+  test('--markdown no longer triggers eslint/shell domains', async () => {
+    await fs.promises.mkdir(path.join(dataDir, 'standards'), {
+      recursive: true,
+    });
+    await fs.promises.writeFile(
+      path.join(dataDir, 'standards', 'guide.md'),
+      '# guide\n',
+      'utf8',
+    );
+
+    await expect(
+      main(['node', 'matrixai-lint', '--markdown', 'standards']),
+    ).resolves.toBeUndefined();
+
+    const shellCalls = capturedExecCalls.filter((c) => c.file === 'shellcheck');
+    expect(shellCalls).toHaveLength(0);
+
+    const prettierCalls = capturedExecCalls.filter(
+      (c) =>
+        c.file === 'prettier' ||
+        c.args.some((arg) => /prettier\.cjs$/.test(arg)),
+    );
+    expect(prettierCalls.length).toBeGreaterThan(0);
+  });
+
   test('explicit shell request + missing shellcheck fails', async () => {
     jest
       .spyOn(childProcess, 'spawnSync')
diff --git a/tests/domains/index.test.ts b/tests/domains/index.test.ts
index a0e5a21..7582163 100644
--- a/tests/domains/index.test.ts
+++ b/tests/domains/index.test.ts
@@ -457,6 +457,34 @@ describe('domain selection', () => {
     expect(selectionSources.get('eslint')).toBe('target-flag');
   });
 
+  test('markdown target flag implies explicit markdown domain request', () => {
+    const { selectedDomains, explicitlyRequestedDomains, selectionSources } =
+      resolveDomainSelection({
+        fix: false,
+        userConfig: false,
+        markdown: ['standards', 'templates', 'README.md'],
+      });
+
+    expect([...selectedDomains]).toStrictEqual(['markdown']);
+    expect([...explicitlyRequestedDomains]).toStrictEqual(['markdown']);
+    expect(selectionSources.get('markdown')).toBe('target-flag');
+  });
+
+  test('domain flag remains authoritative over markdown target flag', () => {
+    const { selectedDomains, explicitlyRequestedDomains, selectionSources } =
+      resolveDomainSelection({
+        fix: false,
+        userConfig: false,
+        domain: ['eslint'],
+        markdown: ['standards'],
+      });
+
+    expect([...selectedDomains]).toStrictEqual(['eslint']);
+    expect([...explicitlyRequestedDomains]).toStrictEqual(['eslint']);
+    expect(selectionSources.get('eslint')).toBe('domain-flag');
+    expect(selectionSources.has('markdown')).toBe(false);
+  });
+
   test('--domain keeps explicit domains and --skip-domain removes them', () => {
     const { selectedDomains, explicitlyRequestedDomains, selectionSources } =
       resolveDomainSelection({