Yep, it's a nice combo.
I put a gel pad in my stock riders seat right before I installed some slightly custom Luimoto seat covers:
http://www.r3-forums.com/forum/713-yamaha-r3-how-diy/54457-installing-gel-pad-rider-seat.html
http://www.r3-forums.com/forum/713-yamaha-r3-how-diy/55817-installing-luimoto-seat-covers.html
Worth every penny........