Yes, you must change the position of the spring plates on your car to get it the correct height.
No, it probably doesn't make sense to try to do it before you get the body mounted and the engine in because everything you add increases the weight on the torsion bars.
Wait til you get towards the end of your build when you have everything together and THEN set the rear (and front) height. You can see how the rear is adjusted here:
https://www.speedsterowners.com...rear-ride-height--vw
The only thing I've changed is that I no longer recommend using baby powder on the torsion bar bushings, instead recommending the use of CV joint grease (available just about anywhere - I got mine from NAPA)
Good luck!