Why is everyone so damn worried? All Alpha Protocol was lacking was technical polish and crazy big hype. Bethesda can handle the former (it's their damn engine) and the latter (they have the money).
From what I hear Alpha Protocol isn't actually that bad, but like Deus Ex and Vampire: The Masquerade - Bloodlines it (as you said) lacked the hype and marketing of most big name games resulting in lukewarm reviews. It should be noted that Deus Ex and Bloodlines have become beloved classics with loyal followings despite their "professional" reception. Professional reviewers are not at all reliable sources, and I for one don't take gaming journalism seriously because of all of the crap going on behind the scenes. I probably won't play Alpha Protocol myself, but it has nothing to do with it being a so called "bad game"; the spy angle and pre-defined protagonist just don't interest me.
Also, RDR had bugs, Fallout 3 had bugs, GAMES had bugs. People read a review and assume the worst, or start subconsciously looking for bugs. As for the guy who mentioned Force Unleash, it's certainly not unplayable. I have a friend who's a bit of a Star Wars fan (not super crazy) and he liked it almost as much as KOTOR.
Yeah, I find it strange that people are concerned about New Vegas having bugs and bad AI because of Alpha Protocol. Fallout 3 was not by any means a perfectly stable game, and even after its final patch it's still a mess. As for the AI, well I don't think it really needs to be said. Fallout 3 had horrendous AI in the first place; in combat your enemies mindlessly charged at you like a bunch of idiots, and occasionally fled if they were getting their rears handed to them. Not to mention they didn't even use stimpacks (or any type of drug for that matter) even if they had some on them.