OK here is my top 10 that I can think of,
1.
Winning Alliance 2003 Championship-OK this is going to sound weird but I think this was the greatest assembly of teams ever in one alliance. It had two of the top five teams in FIRST history (469 and 111) and another great team (65).
2.
Finalist alliance WMR 2005-This is more obscure but look at how silly this alliance is, number 3 seed on Archimedes (27), the number 2nd pick on Curie (33), and the number 1 seed on Archimedes (245).
3. Any Triplet alliance 2006-Some very good alliances, especially the GLR one with 67. That is a pretty cool alliance. Really what else is there to say.
4.
Winning Alliance WIS 2006-111 and 1625 were a dominating combo. They steamrolled everyone in their path. 1816 did an excellent defensive job.
5.
Winning Alliance WMR 2006- Another one of those super alliances, all three teams (70,451,503) in this alliance finished in the top 8 on Curie this year.
6.
Finalist Alliance 2003 Championship 343,25,494 another great collection of teams
7.
Winning Alliance 2005 Championship 330,67,503-Scored most points that season.
8.
Tie Every alliance at 2006 IRI, Winning Alliance 2006 Championship,Finalist Alliance 2006 Championship-All the IRI alliances would have had a shot to have won the championship, Those other two are both great as well.
Honorable Mention-
1999 MWR Champions(Excluded because of being too good),
#4 Newton alliance 2006 (71,254, and 753) (Another unbelievable collection of teams),
Walled Lake Monster 2001 IRI Winning Alliance (308, 111 and others Karthik help please

)