Do you have to remove the bolt in the center of the rotor for rotor removal??
NO, that bolt holds the CV Driveshaft to the hub, it has nothing to do with the Rotor that simply fits over the wheel studs and hub, it is held down tight by the wheel studs when you tighten the wheel down.
BUT, you obvisouly have to remove the caliper to remove the rotor
AND, since the Commander has this new type of brake system like many other Jeeps and newer cars, the pads don't mount in the calipers, they mount in a bracket that wraps around the rotor and bolts to the steering knuckle.
So, after removing the caliper and properly supporting it out of the way, you'll have to remove the pads from the bracket and then remove the two large bolts for the bracket behind the rotor going into the steering knuckle and remove the bracket to pull away the rotor.
Oh, and the rotor will have a little rubber O-ring that slides over the center of the hub to hold the rotor up against the hub, that was only used for the assembly line, you can toss the O-ring away if you like or re-use it to hold the rotor back against the hub when you reinstall the bracket (or you can use a lug nut threaded down over the rotor to hold it in place as well).
The Rotor is a pretty tight fit over the center section of the hub, corrosion on the hub/rotor may make it hard to slide off the hub.