I am doing the 3 1/2 month rotation also, and I like to work my legs 2x week. So one day I'm using the regular scheduled leg workout, and then the second day is a plyo day.
After I'm done with my STS rotation, I'm returning to my trainer who mentioned that as I begin to train for a competition in October, she'll want me to do plyo work 3x week, so doing it now once a week will get me ready for the more intensive stuff.