If this was the Doctor's definition of "in control," then Amy didn't want to see out of control. Even before, at the Pandorica, when they had to restart the universe, they'd never lost the TARDIS.
"You'd better be right, Doctor," Amy warned, her quiet voice straining not to tremble. "I've lost him once, and- and I can't lose him again."
Then the stranger in the trench coat called himself an angel. Which, Amy thought, might have explained why she felt somehow safer around him... But, her rational mind reminded her, that's impossible. "Sorry mate, but the only Angel's I've ever come across were tryin' to kill me." She turned away from him, allowing the Doctor to inspect him more closely. When the Doctor compared him to a fairytale, Amy caught a flash of a time not too long ago and many years from now, when the Doctor told her will tell her that her name, Amelia Pond, belonged in a fairytale. Amy shook her head. This crazy, messed up situation was no fairytale by a long shot.
Then came the Angel's "proof," a crack of lightning which cast the shadow of huge wings behind the stranger against the study room wall. "Trick of the light," Amy said, not as confidently as she'd like to, if she was honest. "Has to be." She circled the man, looking him up and down, then searched the room for anything that could have lined up in such a way to produce those wing-shaped shadows. But even when her search came up empty she refused to believe what she'd just seen. "I'm sorry. Aliens, and- and monsters, and tin robots from the future are one thing, but you're sayin' God is real?" Amy looked at the Doctor, sure that he would know the answer.