I’m not aware of anything changing in v 3.0 that could explain different sorting behaviour and can’t reproduce any problems with sorting at the moment. It appears to be working as it always has done and as intended (tested in Kee 3.3 with KeePass and Kee Vault).
I’ll definitely look into being able to filter the matching logins in future. Possibly we could offer multiple ways to sort the results, although I think this is very unlikely to provide a good experience so it’s low down the list of things to consider at the moment.
The Ctrl-Shift-1 keyboard shortcut opens the Kee popup (unless you or another extension have reconfigured this).