"I didn't know you were on a spaceship. And it's not the first time you've been on a spaceship." There was the TARDIS of course, and then the ship she and Rory were on for their honeymoon. That counted too. He didn't know much about any of his Ponds since New York, and it still bothered him. Not that he planned on letting on.

When Amy asked if they could go home the Doctor shook his head, "She won't let me back in. Locked the door and that was it."