When Sam is talking to Thor, she walks past him, and you can see the hole that they use to control him in his back.
At 07:43, Jacob shows an extraordinary disrespect for General O'Neill. Prior to becoming a Tok'ra, Jacob Carter was a two-star general in the Air Force. He would never show such contempt and lack of respect for another general, especially as a visitor on the other general's base. Nor would General O'Neill tolerate being treated this way on his own base in front of his own people.