Listening to the way he spoke - his voice raw, but quiet, distinctly pained - Scully couldn't help but feel that distinct pang of sympathy under her ribs, and said softly, "I won't leave. I promise." She hesitated, wanting to say something else - do something else - but unsure if she should take the next instinctive step for her. She knew from his reactions that he wasn't exactly comfortable, but he seemed to have responded fairly well. She just didn't want to overstep her bounds.
But if she kept overthinking things, she might make things worse. So without any more hesitation, she lightly stroked his back, lowering herself a little so that she was crouching by his side. She didn't say anything else, hoping that by staying close, she was helping, in whatever small capacity she could. There were a thousand questions rising, but she kept them down. They could wait.