Manhunt is definitely one of them, read my column on Digital Violence for my thoughts on that.
I'm going to say Kane & Lynch: Dead Men is definitely one of them. People complain about the cover system (needs improvement), the aiming (Kane barely has any vision in his right eye, it's going to be a little off, not to mention the recoil and what not are incredibly accurate for the weapons), and the story and characters themselves. It's a modern retelling of a Greek tragedy in my opinion. Play the game and see the story, then think about it for awhile. You'll see what I mean.
Kane & Lynch is a lot of fun, it's different, and it has one of the most compelling stories I've played recently. It's definitely a worthy title, but reviewers slam it because they don't like Kane and Lynch the characters... well, I can understand that. It's not for everyone, but to completely underrate it and say it's a poor game because your personal opinion of the main protagonist is a bit short sighted. I've always said reviewers need to look at the game's intended audience, and see it from that perspective. GameSpot especially didn't do this.