diff --git a/roles/bodhi2/backend/templates/atomic-config.py.j2 b/roles/bodhi2/backend/templates/atomic-config.py.j2
index 87824459fe..8f85d12a79 100644
--- a/roles/bodhi2/backend/templates/atomic-config.py.j2
+++ b/roles/bodhi2/backend/templates/atomic-config.py.j2
@@ -195,6 +195,9 @@ config = dict(
     git_repo='https://git.fedorahosted.org/git/fedora-atomic.git',
     git_cache='{work_dir}/fedora-atomic.git',
 
+    # Some branches contain custom .repo files that we don't want to use
+    delete_repo_files=True,
+
     # Mock command
     mock_cmd='/usr/bin/mock%s-r {mock}' % (rhel6 and ' ' or ' --new-chroot '),
     mock_clean=True,