Hi, my first post here, but I thought I'd contribute.
I had the same problem, huge amounts of hot pixels all around the frame, I knew they were not there all the time.
Above 1250 ISO they would show, and even at 6400 would stay at the same level.
I tried the manual cleaning, never knew how this could help with such a large amount of hotness
here's how they looked:

and here's how it looks 2 minutes later.
The first bad image is from the 5D2_Alpha_One build.
The second is a recent nightly build (december 2013 I guess).
It took me a few hours to finally connect the dots (pun intended), but they're gone for good I hope.
cheers