Freespace 2 won't work in my win 7, hell it didn't work on my vista either. Bought it from GOG.com. Haven't installed the FS Open project though, which supposed to have fixed the vista/win 7 issues. 7 wonders 2 from Steam won't work also.
Other than that two games, all of my games that worked on vista x64, is running flawlessly on my win 7 x64 professional rtm install.
i7-2600k, Xspc rs240, Asus Maximus IV Gene-z, 8gb G.Skill DDR3 1866 RIPJAWSX CL7, PoV GTX 670, Corsair HX1000W, 128GB Vertex 4, WD 1tb Caviar Black, 500 & 320gb Seagate