Thomas is of the High Intensity Training school of thought. This is about having guys lean and able to do multiple repetitions. It is probably closer to what Jason Loscalzo taught as opposed to the more stretching and mobility school of thought used under Todd Rice and TOB. Here is a good recap from a guy who trained under Thomas. For those who care, Thomas doesn't like overweight linemen.
I don't know Thomas's connection to Gene or Spaz. My guess is Spaz both are connected enough to Penn State people, so that when these guys were cut lose they could pick them up. Obviously with any Penn State hire, someone will ask "what did this guy know about Sandusky." I don't think it is an issue at all. Thomas is not a recruiter and did not overlap much with Sandusky. Although Sandusky had access to the facilities there have never been any reports that a S&C coach witnessed anything.
Overall, I think this will be a solid hire. BC needs someone who can coach these guys up and get them in shape. As an outside observer, Penn State always seemed to have that area covered.