Just found this thread,
https://clearml.slack.com/archives/CTK20V944/p1639037799391000
Will try to follow and see (although it looks the same like what I tried)

Adding the flags he added also didn't help

Still no good, managed to apply with errors only

Nope. It gives me errors.
Just like the guy that replied in the thread I linked in my previous reply here.

The uncommitted changes are in git diff format - can't you simply take them and use them with the git command?

Ok, seems like the problem is solved.
These uncommited changes were already applied to the local branch, but the git apply error wasn't very informative.

Thanks!