Gitlab backup/restore doesn't include custom git configs


I am looking for help regarding this issue I have with Gitlab backups/restore.

I am using Gitlab-ce 9.3.6 via omnibus installation.

While not the best way to do things, my organization has custom git configs set for some repos. For example, in /var/opt/gitlab/git-data/repositories/<group>/<project>.git/config values such as receive.denyNonFastForwards or hooks.allowunannotated can be found.

In Gitlab 8.10.X, the backup would simply tar the <project>.git directories, which preserved the custom configs. However, with Gitlab 9.3.6, it seems that the backups are made with git bundle which doesn’t include the custom configs.

Any advice on how to proceed? What is the rationale for not backing up the configs? Thanks.