diff --git a/.changeset/weak-camels-roll.md b/.changeset/weak-camels-roll.md
new file mode 100644
index 0000000000..90636605ec
--- /dev/null
+++ b/.changeset/weak-camels-roll.md
@@ -0,0 +1,12 @@
+---
+'@backstage/create-app': patch
+---
+
+Updated the root `package.json` to use the new `backstage-cli repo clean` command.
+
+To apply this change to an existing project, make the following change to the root `package.json`:
+
+```diff
+-    "clean": "backstage-cli clean && lerna run clean",
++    "clean": "backstage-cli repo clean",
+```
diff --git a/packages/create-app/templates/default-app/package.json.hbs b/packages/create-app/templates/default-app/package.json.hbs
index 47fb0d622f..26c6a61972 100644
--- a/packages/create-app/templates/default-app/package.json.hbs
+++ b/packages/create-app/templates/default-app/package.json.hbs
@@ -13,7 +13,7 @@
     "build-image": "yarn workspace backend build-image",
     "tsc": "tsc",
     "tsc:full": "tsc --skipLibCheck false --incremental false",
-    "clean": "backstage-cli clean && lerna run clean",
+    "clean": "backstage-cli repo clean",
     "diff": "lerna run diff --",
     "test": "backstage-cli test",
     "test:all": "lerna run test -- --coverage",