The clear is usually sprayed within 30-45 minutes after the base.
If you want to reduce orange peel, raise the pressure of your gun slightly. You'll use more product, but you will get a better finish.
Usually 2 coats of clear will be sufficient, but if you plan on cutting then buffing, put 3 coats on. The trick that I use to tell when it's time to apply another coat of clear, is that I will stick my finger onto the clear (on a tape edge) . When you pull your finger away, you don't want to see strings. This usually takes about 15-20 minutes