Hi, Programr - this may not specifically answer your rear tire replacement struggle, but here's what I do so I'm not wrestling with the wheel, axle, and all the rest of the stuff.
Replacing tires on bikes with centerstands
I hate this job ... replacing wheels after having new tires mounted. But I discovered a way of using my motorcycle frame jack in combination with the center stand on my T100 to make it easier to align the axle holes in the wheels with swingarm and fork tube holes. This procedure also seems to make it easier to remove the wheels.
Picture the bike with both wheels removed, supported by the center stand in the rear, and the hydraulic motorcycle frame jack in the front.
I first replaced the rear tire. Since I used the fat 150/70 Dunlop 501 on the rear, I needed lots of clearance to get the tire under the fender, so, with bike on center stand, I carefully lowered the front of the frame with the jack. (My jack will not go so low as to allow the bike to 'ride' off the center stand - that would be bad - next time I will use a strong nylon strap to lock the centerstand in place just to be safe) Since the bike pivots on the center stand, lowering the front (with front wheel removed) raised the rear end, giving me clearance. Once Iâ€™ve positioned the fat 150 tire and wheel in place, I began using the jack to slowly (very small increments) raise the front of the bike, which in turn dropped the rear swingarm until all the holes in the swingarm and wheel lined up, permitting me to slide the axle into place.
Same for replacing the front wheel/tire. Pivot the front up using the jack. Then carefully lower until holes in fork tubes and wheel line up, and replace the front spindle. You may find it easier to drop the bike past the alignment point, then use the hydraulic jack to raise the bike and bring all the holes into alignment. The jack is much more controllable when raising it instead of lowering it.
Using this approach, you can concentrate on getting the calipers and spacers in place, instead of trying to do that while also wrestling with the tire and wheel.
A scissors jack in the front would work as well or better than the large frame jack.