Make sure your modules are properly installed in the controller so that it is set up for those zones. Then also be sure that the zones have run time set for them, since it will skip over zones sometimes if you don't have any time on them. If that doesn't fix it, you'll probably need to call your local irrigation service to come take a look at it. They'll be able to get a better idea being able to see it and all.

If you are talking about rotor heads, you will need an irrigation head adjustment tool. Look at the top of the sprinkler head and you'll find two circle shaped slots, these are for adjusting the rotation and spray range. There should be a third little slot that looks like a line with a round part in the center of it and usually covered by a rubber flap. This is the one you want. If you push the top of the tool (the plastic handle end) into this slot, you can pull up with the tool and raise the head. you'll need to grab it with your hand to hold it there. To change out the entire head assembly though, you'll likely need to actually dig it out so you can disconnect it.