Seth Roberts has made his entire reputation on self-experimentation. (Partly on the strange things he claims to have learned by doing it, and also partly on his defense of it as a methodology.)
He's written some papers that talk about the methodological concerns. Here are two that Google churned up:
http://sethroberts.net/articles/2010%20The%20unreasonable%20...
http://escholarship.org/uc/item/2xc2h866
I can't honestly claim that he has successfully made n=1 experiments respectable, but I think it's safe to say he's very well aware of the criticism on these grounds and is not ignoring it.