The first Uncharted was essentially a murder simulator IMHO, to the point of being oppressive. You have plausible and empathetic characters who then choose to kill wave upon wave of people without feeling any remorse or even pause and often for no better reason than they want some treasure. This differs from the average shooter where you have zero emotional attachment with the characters or the protagonist is not supposed to be someone you actually like. The more effort Naughty Dog puts into character development, the less it makes sense that Nathan Drake is going to want to wantonly murder hundreds of people (unless his behaviour is just a sham and he is supposed to be a "Dexter" like character).
Hmm... don't think that's entirely accurate. I don't know about "protagoist is not supposed to be someone you actually like". I certainly liked Master Chief in Marathon + Halo 1, Link in Zelda, Nathan in Uncharted, and many more.
In U1, I believe he did not know the island was infested with so many pirates to begin with. If he didn't fight back, the pirates and trained soldiers would have murdered him. He wanted to give up after captivity, but
found out Sully was still alive, and embarked on a rescue mission
The second one so far seems to weigh the killing sprees a bit better with the story and platform sections. I think it is still just a bit heavy on the mindless death and destruction but the pacing is good enough that I am not constantly wondering if Nathan suffers from a personality disorder.
U2 also introduced the stealth element. I think they only need to clean up a few dialogues when he knock people out. Again, if he didn't fight the private army back, the entire village and people around him would be dead. The only unreasonable part is in the museum where some guards were meleed to death unnecessarily. In U2, he wanted to give up again, but Shafer and Elena convinced him to stay on course for the greater good.
EDIT:
The more effort Naughty Dog puts into character development, the less it makes sense that Nathan Drake is going to want to wantonly murder hundreds of people (unless his behaviour is just a sham and he is supposed to be a "Dexter" like character).
So maybe they're going to have to start killing zombies or something that doesn't raise moral questions.
Probably not a good idea for video games which feature killing to raise moral questions either.
It could be the other way round. The more effort Naughty Dog puts into character development, the better they can refine Nathan, and the more consistently we can understand him.
The "Master Chief" in Marathon was poorly explained too.