Originally Posted by Helbore:
“Prisoner Zero referred to them as cracks in the universe - clearly in plural. However, to a non time traveller, the same crack appearing at different points in time and space would appear to be several. So it's quite possible it's the same crack.
In fact, I'm pretty sure it's not only the same crack, but that it's somehow following Amy around. Not sure how or why yet, but I think she's unknowingly dragging it through time and space - hence why it always turns up wherever she is.”
I think you're right... it started out as a crack in Amy's (Amelia's) wall, and logically, it would be following her rather than the Doctor, who hasn't a clue what it is (don't forget, he's only actually seen the one in amy's room, the others have been shown to us after the Doctor left.)
If I'm being cynical, it's another unnecessary story arc, in another series of "Companion Who", with guest star the Doctor, which is a shame, I was hoping we'd seen the last of that.