Hmm that was interesting (I just watched it on iPlayer whilst eating my breakfast).
I must admit I thought maybe the Pandorica contained the Doctor (or one of him anyway), seeing as generally he's the worst thing in the Universe for most of the baddies (I also wondered if his Daughter could reappear, since she's sort of in the same category, basically being a clone of him).
It's a bit of a dark end to that episode, what with everyone apparently incapacitated by something, although we don't really need any "...and next time", because we know they'll be back, or at least the Doctor will.
I wondered about the Nestene intelligence, because I've always thought of that as a bit of a second class baddie, not really up to the level of the Daleks or the Cybernen, but I guess within the Alliance they were a suitable candidate for that function, being good at being undercover.