I get a few of these messages on boot since I upgraded to 3.5.4 (collie.) It is the very first thing that shows up when I boot. I think it might be coming from AltBoot, but I'm not sure.
stty: standard input: bad file descriptor
AltBoot seems to work ok, and i'm not sure what it's trying to do that gives this error, but I thought I'd bring it up just in case.