Cassie felt a strange calmness to have Jonesy near. He wasn't as horrible as Frank was, and he was actually trying to comfort her through all the evil that was being done to her. He comforted her and soothed her, making her feel that he really was there for her, that maybe he was only following orders and he had no choice. Maybe they had something on him, and were blackmailing him into doing this. Whatever it was, Jonesy was definitely playing mind games, twisting her thoughts to believe he was  the "good guy" in all of this.  She nodded to him, he wasn't going to let anyone else hurt her that way. Then he kissed her forehead, like a father does to a scared child, and she settled somewhat, the pain still flowing through her body. Cassie believed, that with Jonesy there to "protect" her, everything would be ok. She didn't know how wrong she would end up being. He was playing her like a fine tuned instrument, and she was none the wiser for it.