Barry,
I have moved myself and have seen professional move massive pieces of equipment or dismantle and put back together with much success. The common denominator always appeared to be using mechanical advantage, using brain and never bruit force. I have done several car clutches but never a tractor yet. I have not seen how you rigged things up to separate both pieces (front and rear). If I were to do it , I'd keep the back end stationary by lowering an implement such as a carry all and lower it on a wood crate or something to make the back level and solid. I'd use an engine hoist and grab the motor side as close as I can to the bell housing. That would allow to lower and raise the front incrementally about the pivot point which would be the axle. I'd use a bar (such as a rock bar) to nudge the front back and fort. I would also might use caster to make a platform that allows movement left to right and back and back forth as well. The caster truck might have a jack stand on it to safely take the load close to flywheel. All of that should help you getting close to mate both pieces , lift up or down or left to right to line up the dowels. I'd make sure to use an aligning tool so clutch disks are well aligned with the input shaft so interference would not be a major issues.
Question on the disks, it looks to me you have to start with laying the transmission pressure plate on a flat surface put, put the transmission disk, then put the disk for the pto and then pressure plate for the pto. At this point you need to move the finger up and line it up with the pin holes, but in order for them to line up you need to squeeze the pressure plate together by using 3 C clamps. At the point you are able to put 3 pins in the holes where the fingers attache to the pressure plate and finish it by putting the cutter pins in place and then you have one clutch assembly. Do I have it right?
JC,