Hi Jason,
Unfortunally not in this version. I had'nt think about that. But you 're right it would be better to have the choice between rom name and title on the config tool. I 'll think about that for a future version.
For now, what you can do , go in the metadata folder and open the file FullList.Txt with the notepad.
And use "search" to find what rom match with what games. And then find it in the config tool.
Another solution, would be to use Favorite lists.
You do a config with all your roms , you enalbe Favorite list , you run Atomic , in Atomic you will see the game name , all game you want in your game list, you put it in the Favorite list (by just pushing the right button (see AtomicKeys)) . then once all your games are in the favorite list . Just replace the game list file by the Favorites one.
I hope it helps