She didn't know whether it was her fault that he wasn't home and needed time away from her or not. "Oh.. well it's okay.. you know I don't mind being woken up.." especially if it was for that, though she wouldn't have minded being woken up to go out with him. But she knew better then to get in his face when he was moody, and she thought maybe that was one of those times.
Pepper frowned slightly, knowing that he must be hurt about the whole family thing. "Of course I miss you.. I always miss you.." she said quietly. "I'm sorry if I did something wrong.."