LogFAQs > #975361397

MM1-11 (Powered Up too)
Wily Tower
MM&B (recently picked up the original super famicom cart in Japan actually)
MMI-V
MMPB and PF (including that Neo Geo Pocket port)
MM Battle and Chase
MM Soccer
RM&F Challenger from the Future (saw a copy in Japan but it was like $80 which is way more than it's worth)
MMX1-8 (Maverick Hunter X too)
MMXtreme 1-2
Command Mission
MML1-2
Misadventures of Tron Bonne
MMZ1-4
MMBN1-6
Battle Chip Challenge
Network Transmission
RMEXE WS
MMZX and ZXA
MMSF1-3

So nearly all of them excluding some spin offs that never got released outside Asia (Rockboard, Strategy, Super Adventure, XOver, etc.). I did pick up BN4.5 in Japan but haven't gotten around to beating it yet.

I also never bothered with the DOS games beyond satisfying my curiosity about how bad they are. They truly live up to their reputation.