diff --git a/package.json b/package.json
index 2951eb8540..c81cb98d34 100644
--- a/package.json
+++ b/package.json
@@ -26,7 +26,7 @@
     "dev": "yarn workspaces foreach -A --include example-backend --include example-app --parallel -v -i run start",
     "dev:next": "yarn workspaces foreach -A --include example-backend --include example-app-next --parallel -v -i run start",
     "docker-build": "yarn tsc && yarn workspace example-backend build && yarn workspace example-backend build-image",
-    "fix": "backstage-cli repo fix",
+    "fix": "backstage-cli repo fix --publish",
     "postinstall": "husky || true",
     "lint": "backstage-cli repo lint --since origin/master",
     "lint:all": "backstage-cli repo lint",
diff --git a/packages/cli/src/commands/index.ts b/packages/cli/src/commands/index.ts
index 3554ddfbef..25a3a4e26c 100644
--- a/packages/cli/src/commands/index.ts
+++ b/packages/cli/src/commands/index.ts
@@ -70,6 +70,10 @@ export function registerRepoCommand(program: Command) {
   command
     .command('fix')
     .description('Automatically fix packages in the project')
+    .option(
+      '--publish',
+      'Enable additional fixes that only apply when publishing packages',
+    )
     .option(
       '--check',
       'Fail if any packages would have been changed by the command',
diff --git a/packages/cli/src/commands/repo/fix.ts b/packages/cli/src/commands/repo/fix.ts
index c96484e2ed..88070ceb8f 100644
--- a/packages/cli/src/commands/repo/fix.ts
+++ b/packages/cli/src/commands/repo/fix.ts
@@ -428,17 +428,18 @@ export function fixPluginPackages(
   }
 }
 
+type PackageFixer = (pkg: FixablePackage, packages: FixablePackage[]) => void;
+
 export async function command(opts: OptionValues): Promise<void> {
   const packages = await readFixablePackages();
   const fixRepositoryField = createRepositoryFieldFixer();
 
-  const fixers = [
-    fixPackageExports,
-    fixSideEffects,
-    fixRepositoryField,
-    fixPluginId,
-    fixPluginPackages,
-  ];
+  const fixers: PackageFixer[] = [fixPackageExports, fixSideEffects];
+
+  // Fixers that only apply to repos that publish packages
+  if (opts.publish) {
+    fixers.push(fixRepositoryField, fixPluginId, fixPluginPackages);
+  }
 
   for (const fixer of fixers) {
     for (const pkg of packages) {