Help w/ body kit install

Help w/ bodykit install
I have a 95 civic coupe and i just bought the zi boxer kit for it. umm, front and rear bumpers went on real nice, but i was wondering about the side skirts. are they supposed to fit over the original side skirts or do i take them off? i took off the oem ones and now i have a 1" gap between the SS and the body in the back and the SS sits up 2-3" inside the door. any DIY body kit installs?