I'll need to rewatch the final later, those 100 my in the end looked odd. Nibbles looked ok the whole climb and then completely cracked. He didn't even try to get out of the saddle, nothing. Did he go into the red too early? He was probably trying to send a message to Berto, but I guess it backfired. Now Berto knows that if he digs deep, Nibali will probably bury himself to stick to his wheel and then blow.
That said, it's true that this climb didn't suit him much. In similar stages in the past he has often suffered and lost more time but it's not like this type of climbs suit Contador much either. If he's smashing the field here, you gotta worry about what's gonna happen in the big mountains. Nibali is a fighter and reads races perfectly in normal conditions but it's gonna be a hell in the coming days. If I'm Martinelli I tell him to find his pace and stick to that, like Uran did at the Giro. If Contador is at 2011 level there's nothing to do, it's that simple.
As for Astana, I don't think they were that bad considering the effort they've put in the first stages of this Tour. Boots looked fine to me. Birdsong probably had an off day. I didn't really understand making Kangert wait for him, should that tell me they are not fully committed to Nibbles? Or they are hoping Bird can keep his GC placement for tactical moves in the future?