Answer:
If you have a standard kit, the motor goes in the tube at the bottom so that the end of the motor with a clay nozzle sticks out. Place an igniter in the motor and (if you are using Estes or Quest motors) put the plug ontop of the igniter and push it in. Turn the rocket upright and put it on the pad. If you don't have a rocket with a motor mount meant for this than don't try it.