You cant blame Nadal when Federer loose in SF/QF against Djokovic, Soderling, Berdych or Tsonga.
Rafa was there in finals, but Federer lost match before.
Well then the exact same happened to Federer in 2005-2009 when Nadal couldn't make it deeper into non clay tournaments, which brings me back to my original point:
The H2H has too much of a statistical bias to give us a good indicator of the better player. Correlation=/=causation.