You were the kid an angel and with Dean, years earlier, you'd produced a nephilim. Though, only your mother knew what you actually was, as, in order to protect you, she'd ripped your wings out, up on your birth. Well, only your mother and Castiel knew what you were. Dean had had no idea this entire time.
When Jack showed up, it began affecting you and you started getting your powers, which led to your mother confessing to Dean what she did, which led to you overhearing and running away.
Cas brought her back but you refused to speak to your mother. So, Dean attempted to talk you down. Though, the way he looked at you had definitely changed. The way he acted around you had changed. Almost- key word being almost -like you were some kind of monster. But you were still his kid.
Dean walked into your room and sat by your bed. "Hey, kiddo," He said.