I didn't find Doom 3 to be all that different from the older FPS, granted I'm a bit younger and only got seriously into Quake II, Unreal Tournament etc.. But as I recall, I disliked Doom 3 because it felt so antiquated. I get the feeling we are remembering these games as better than they actually were
Fear 3, for example, was a fairly OK FPS but I think I would enjoy it a lot more than replaying Quake II.
Current gen FPS game on PC I hate would be Halo, and heavily scripted single player games like CoD. Otherwise Fear, Crysis, Far Cry, Metro, Stalker lots of descent current gen FPS.