Quoted from robin:
I do still think we should combine the ratings for multiple versions of a game into one Top 100 entry per game.
It is hard to say. Obviously, games like the WOZ, Adams Family and SM should all be rated as a single game as they play identical. Also, games like Tron that are nearly identical (if you take out the lighted ramps the only difference is the drop targets and a slight code difference) could be rated together fairly.
However, games like AC/DC premium and XMen have a lot of different features. In XMen the three main playfield toys are not even on the pro. Each of the last Stern LE's has been more and more different from the pro and they seem to keep making higher numbers of LE's. Also, they are making a lot of these LE's (550 of XMen, even more of AC/DC) so they are making enough to justify it having their own ranking . . . twice as many as the BBB is enough to not even call it a botique run.
Anyway, I think you go on a game by game basis for which games are merged and which games are different. As the LE's continue to get more different, it will make less sense to rate them together moving forward but you shouldn't have a hard and fast rule.