A factory stock XJ has a standard u-joint at both ends of the rear driveshaft. The t-case output shaft and the rear pinion shaft need to be parallel (and the u-joints phased properly) to run without vibration.
With a slip yoke eliminator kit, you now have a constant velocity joint at the t-case end, and a standard u-joint at the rear axle. You now want the rear driveshaft and the rear pinion shaft to be parallel. Okay, the pinion needs to be 1-3 degrees down to allow for a little axle wrap.
Why?
A standard u-joint introduces a sine wave in the output shaft. When both shafts are coaxial, aka parallel, they spin the same. As the output shaft gets twisted off axis, it starts to vibrate when the output shaft is not spinning at the same speed as the input shaft.
As far as what you need, the best way is to put in the SYE kit and driveshaft, and use an angle finder to figure out what the angle is on the pinion, and on the driveshaft.