I have this same problem, but not in a Cat Genie. i have a ScoopFree litter box. Oddly, my cat did just fine in this box for a little over a year, then boom, she starts to "double-duty" her potty. Meaning, she pee's in the box, jumps out and poop's on my bathroom linoleum right next to the box. If I place a manual box nearby she will poo in that though, but I wish I wouldn't have to do that.
I'm not sure what made her start doing this?! I'm going on vacation for a couple weeks and her highness is going to a kennel. I hope this "away from home" episode will teach her a lesson and not make things even worse when she gets home.