Without getting into the general merits of pat-downs and MMWs (plenty of threads on big picture TSA policy fecklessness), it is a valid question under current rules if said machine finds something that needs resolution and a screener is needed for a pat-down, or even if it is an opt-out pat-down, or even if just WTMD that keeps beeping. Whether every machine can tell the difference between moobs and boobs I cannot say, but per the article the machine's software is built under certain gender presumtions to help resolve whether something is a weapon (how valid those presumptions are is up for debate it seems).

There are certainly different ways one could ask the gender questions if needed, some more polite and sensitive than others.