Oh, I see what you're saying now. No such problems here, behavior is no different from previous versions for me.

This is only a guess as to what's happening, I would suspect that Alcohol is listing your physical drives based on port location and not drive letter. Drive letter's can be dynamic, while the connection port or ID channel is specific. You may consider reassigning drive letters to fix the order listing.

I am pretty certain someone from the development team will be very quick to point out my errors if that is the case.