diff --git a/src/dev/register_git_hook/register_git_hook.js b/src/dev/register_git_hook/register_git_hook.js
index e0a119b33e4210..670a3cb2b3aeaf 100644
--- a/src/dev/register_git_hook/register_git_hook.js
+++ b/src/dev/register_git_hook/register_git_hook.js
@@ -22,13 +22,23 @@ import { chmod, unlink, writeFile } from 'fs';
 import dedent from 'dedent';
 import { resolve } from 'path';
 import { promisify } from 'util';
+import SimpleGit from 'simple-git';
 import { REPO_ROOT } from '../constants';
 
+const simpleGit = new SimpleGit(REPO_ROOT);
+
 const chmodAsync = promisify(chmod);
+const gitRevParseAsync = promisify(simpleGit.revparse.bind(simpleGit));
 const unlinkAsync = promisify(unlink);
 const writeFileAsync = promisify(writeFile);
 
-const PRECOMMIT_GIT_HOOK_SCRIPT_PATH = resolve(REPO_ROOT, '.git/hooks/pre-commit');
+async function getPrecommitGitHookScriptPath(rootPath) {
+  // Retrieves the correct location for the .git dir for
+  // every git setup (including git worktree)
+  const gitDirPath = (await gitRevParseAsync(['--git-dir'])).trim();
+
+  return resolve(rootPath, gitDirPath, 'hooks/pre-commit');
+}
 
 function getKbnPrecommitGitHookScript(rootPath) {
   return dedent(`
@@ -69,7 +79,7 @@ export async function registerPrecommitGitHook(log) {
 
   try {
     await writeGitHook(
-      PRECOMMIT_GIT_HOOK_SCRIPT_PATH,
+      await getPrecommitGitHookScriptPath(REPO_ROOT),
       getKbnPrecommitGitHookScript(REPO_ROOT)
     );
   } catch (e) {