A friend of mine has come up with a very interesting theory, which I have spent today investigating.
In Flesh & Stone, the angels nick the Doctors jacket just before he runs into the forest. There is the business with Amy and the angel in her eye.... before the Doctor leaves her sat on the rock stump thing. He then returns and tells Amy that she needs to trust him, do what he says, and remember what he told her when he was 7.
Thing is, he has his jacket on.
Yes, maybe its a huge continuity gaffe - but what if it isnt? What if to fix everything, he is going back over his adventures and doing stuff, setting things up.
Go back and watch The Eleventh Hour again.
He tells her to do as he tells her, not ask stupid questions and don't wander off.
He tells her that sometimes grown up lie to make you believe things are ok when they are not: Everything's going to be alright.
Then, we see her sat waiting on her suitcase for him. The camera pans back into the kitchen and a man runs very quickly through the shot - this 'Future Doctor' back to make sure things happen?
Later when he returns 12 years later, we see a him trying to get into Prisoner Zeros room, from the point of view of room next to the radiator - since the next thing that happens is Amy whacks him with a cricket bat, we naturally assume it was her POV we were looking from .... but in that case she gets down that landing very fast and silently to hit the Doctor..... maybe it wasn't Amy's eyes we were looking through...
Then, just before the Doctor returns to finally take Amy away, the night before the wedding, as the TARDIS 'brakes' are heard grinding, and we briefly see Amelia sat on her suitcase ... in daylight ... reacting to the TARDIS arrival...... before we cut back to Amy in her bed.
The Beast Below: TARDIS arrives on Starship UK. The Doctor is barely out of the door and we see him in the screen with the crying little girl, he waves for Amy to join them. He then sets Amy up on her investigation, saying it took 4 attempts to get the girls purse. Seems he has been there a lot longer than the 40 odd seconds its been for Amy.... Maybe he hadn't even left the TARDIS, and this was Future Doctor?
We have also had these snippets that River Song was in prison for killing some man, a great man, the best. We also know that the explosion that causes the crack is still out there and that the Pandorica will open and silence will fall. It would take an event/object the importance of the Doctor to stop it..... are we being lead to think she throws the Doctor to it to stop it? And if one falls into the Pandorica, once all of the evils of the universe have escaped, are you left with hope? And what form would that take? Your faithful companion? Your most faithful companion - your TARDIS?
Then again, allegedly, somebody else taught River to pilot the TARDIS - surely somebody else of equal stature?
And there are bound to be red herrings..... and this could all be bollocks, but its fun theorising, isn't it?