Did you do anything to the track bar when you added the lift? Lifting will shift the axle over. You can move the axle by drilling a new hole for the track bar or get an adjustable track bar. It's not critical that the axle is centered perfectly. To stop the rub you can add a couple washers on the steering stop
2003 TJ, 33" BFG AT, 2" BL, 2" BDS spring lift, Truck Lite headlights, Homemade sunrider top.