Jonathan was a nobody, except for maybe known for being a weirdo and a loser. So why did you, his crush, actually know who he was? And care about him? It was unbelievable to him. You were popular, unlike him. You were so out of his league, yet right now, you two were hanging out at his house. And you were comforting him. He was suppressing tears, cuddled up in your arms. He was so upset and stressed because Will was still missing and his mom was going crazy... So right now, you were all he had. But he was still shocked by how you actually cared about him. Cared enough to comfort him.