I don't reckon the Silent bit from TIA has any relevance - from what we saw people could withstand Silent lightning for a while, and what with River's trigger-happy nature, I don't reckon anyone trying to kill her dad would last all that long.

Not to mention Rory's a badass from Planet Awesome who can stand up to excruciating pain being directed
into his eyeball with little more than some convulsing of the hands.
Nice theory, though.
Personally, I think the Daleks are going to return in a big,
big story; and Amy will be killed off. Then, outraged and heartbroken, Rory leaves the TARDIS for good. Either that or the duo ask why he never sees River anymore; so he takes them to her grave. The trauma causes them to leave the TARDIS for good; not hating the Doctor, but too upset to carry on knowing that she's dead.
TL