Based on what I've read I'm comfortable with the millimeter wave system and have some concerns about the backscatter x-ray system. However, if the backscatter system operates correctly then the amount of radiation exposure is really quite small compared to the amount you'd receive on the actual flight. I still think I'd opt-out of the backscatter system until long term effects and performance are studied.
Tip: Millimeter wave looks like a circular telephone booth, Backscatter x-ray looks like a big rectangular wall you stand in front of.
http://www.jaunted.com/story/2010/1/5/163631/3181/travel/Ful...