X-rays have enough energy to break molecular bonds in your body (ionizing radiation), millimeter waves do not.
The technology deployment is airport-specific, so you will only find one or the other at any given airport, e.g. O'Hare uses Backscatter, Midway uses mm wave.
La Guardia is the one airport serving a major US city that does not have any of the new scanners, which can be nice if you typically opt-out.
edit: never mind, the flyer talk pics are much better.