What people miss here is that the CIA has undercover folks, and they have public folks. The vast number of their team are public. I'm going to make a bet...that if anyone digs into this whole thing...the wife hasn't been a covert agent in a long, long time. And if that is the case, then the whole Wilson story goes down the drain. She was likely an analyst, who simply moved up the chain via her methods...and I didn't say that she used any special talents to get to her status in life.
One of the VIPS folks revealed in an interview that she was a Career Trainee--all CTs are covert, regardless of the job. She could have been an analyst, worked at Langley every day, whatever. As a Career Trainee, her covert status goes with her.