I am surprised of the complete disdain other reviewers feel over Sam and Pete getting together. Common guys, you know it was done to create more drama to the Jack & Sam thing. Anyways, yes he was a a bit of jerk for spying on her, but he digs her, and what the hell is this big secret anyways?
Before getting involved with anyone, make sure you know what you are getting into. Cover your booty. Sam wasn't going to tell him anything, and he knew it. Protecting himself is all he did, plus find out all about the highest-level, top-secret, government progam.
Nice finish to the episode.
Way to go, Pete!