Being paranoid doesn't mean you should speculate wildly about intent. Maybe they also think she's an alien. Maybe they don't. Without more data, spinning around on it won't help and may possibly make the problem worse.
Well, she is a core contributor to Tor, but I don't see any possible reason why the FBI could not say that they just wanted to ask her a couple of questions about Tor to her lawyer(s).
I've been following her on Twitter for a couple of months now, and from me "getting to know her" from social media and her blog, I don't see a possible legal reason to ask her a few questions that could not be shared with her lawyer. After all, like she stated, her work is very transparent, so everything she's working on is available to the public.
Yup. It's impossible to be overly paranoid about any government. Too bad the people who didn't realize this when it mattered are no longer with us because they're imprisoned, dead, or missing. Maybe growing up in the US where such occurrences are rare only because of the humongous population but still happen with regularity makes people soft or stupid or both. Seems to me like parents who fail to teach their children this are doing them a disservice.