Okay, here's a few of mine (PC-oriented, rather than consoles).
Bioshock 2 is a better game in every respect than Bioshock.
Deus Ex was plainly ugly from the moment it was released, and the writing is laughable.
No Bioware game bar Dragon Age 2 and Mass Effect 2 has any kind of good writing in it (and those two are pushing it as it is).
Speed runs, glitches, exploits and the like are not reason to celebrate emergence and player agency: they simply mean a game is broken.
Virtually none of the "classic" point-and-click adventures (to say nothing of their descendants) are clever or funny.
Despite having one of the best stories in the medium, Max Payne 2 is a mediocre game at best (if markedly better than the original).
Grand Theft Auto IV is the best game in the franchise by a huge margin, and the surreal asides in every game before it weren't funny and actively worked against any sense of immersion (or place, or atmosphere, or whatever you want to call it).