I've never seen this kind of ranking and I don't know if exist, but if we takes just finalists of Champions League from the season 1959/60 - 2008/09 we would have:
1. CSKA Moscow
2. Modena
3. Sisley Treviso
4. Rapid Bucharest
5. Dinamo Bucharest

I've never seen this kind of ranking and I don't know if exist, but if we takes just finalists of Champions League from the season 1959/60 - 2008/09 we would have:
1. CSKA Moscow
2. Modena
3. Sisley Treviso
4. Rapid Bucharest
5. Dinamo Bucharest
Season 2010/2011
Season 2011/2012
Yeah, thanks, totally forgot we have a thread for rankings as well