This is the right place to ask questions. In practice it can't happen on installs of this package. Sorting only exists to convert blockstores from Peergos versions more than a year old, from before each user got their own folder of blocks. A new server's blockstore is sorted from the moment it's created. Every install of this package is newer than that, so the hook never sees "still being partitioned".
The wait only matters if someone moves a very old self-hosted Peergos into the app. Even then, the hook waits up to an hour. It backs up after that rather than failing for two reasons: Peergos gives the same answer when sorting failed and won't resume until a restart, so nothing is moving; and a failing hook makes Cloudron abort the whole backup.
I will probably remove the "still being partitioned" wait in the next release to avoid confusion. I just saw the message appear in my Selenium test suite for the package, so I was overly cautious.