I'm willing to bet that has way more to do with the substantial body of people flagging down all the NSA posts than some mod conspiracy
The story in question here had 200 upvotes when it was a link to an NSA story at Slate. The link was changed to the same, source NSA story at First Look and it was quickly flagged to oblivion. I think there're likely some monitoring scripts and flag alerts at play, not just NSA fatigue by actual users.
"That Daniel Gackle is the HN moderator" is the kind of factual detail you might want to know before developing very strong opinions about how the site is run.
Second, if you don't trust the site moderators, HN isn't going to be a pleasant place to spend time.