Honestly, if I were Nathan, I'd want to distance myself from Peter feeling like seeing him further would only make me feel more guilty. And in his mind, he has no right to think of Claire as an intruder. She's his fault and he knows that.

That's what I'm saying. You have a room of a bunch of different people who see the characters slightly differently. If none of them think anything is weird about their behavior, then that probably implies that their behavior is in character.

And on a different note, if you think about it, the Company is usually in way over its head when it comes to containing these super-people. Sylar escaped, Nathan escaped, Matt remembered a lot of what happened... It makes sense that this escape wasn't insanely difficult.