Does the Latin Stack Exchange not give an association bonus for having a high reputation on other SE sites? I'm not particularly concerned on a personal level, but I do wonder if that's intentional or if it's a bug.
The Latin site is no different, and you should receive your bonus as usual. As far as I know, this happens occasionally across the network. A similar question was recently asked on the main meta, and the solution is to delete your Latin account and rejoin this community. If you lose access to your question after deleting your Latin account, I hope we are able to merge the old account with the new one.
Let me know if you encounter any problems, and I will try to find a solution.