While testing bower, I added 2 proxy repos and a hosted repo (in that order) and went to put them in a group. I noticed the order displayed on the Available list was: proxy, hosted, proxy2. This was not in the creation order or alphabetical order.
I can imagine this might be a problem with more than 3 repos. However, workaround SHOULD be filtering, assuming the names arn't too similar and long.
I doubt this is regression, tho I haven't checked at this time.
I also doubt this is bower specific, tho I also didn't check.