Check in the MetaData folder. check the File FullList.txt , if it is empty , it is not good. (that cause you see rom name instead of game name).
I have a little bug in AtomicManager and sometimes it clears that file

So, get again the FullList.txt file from the original distribution and copy it in the Metadata Folder.
or you can generate your own.
Open a command prompt (dos box) , go in your Mame directory and type :
mame -listfull > fulllist.txt
Then copy the fullList.txt in the Metadata folder of Atomic.
Be sure that in AtomicManager , the Metadata folder point to the metadata folder provided with Atomic.
It should solve your problem.