Puzzled by my rear wheel

Good lord, like I have said many times another lesson for posting in this group know how the vehicle is meant to operate and start with the basics.
Well people come to this forum to ask questions, others help answer them. If you cant reply to the questions nicely, then don´t bother commenting at all.
Before taking everything apart for a complete overhaul I want to take a spin on it ... so now I do not feel any free play on the real wheel or the swing arm, I need to check properly the chain but adjusters are set at equal distance.
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What size is the rear tire one the Honda? If not an 18" wheel then it has been laced wrong & is off center. I use an old swing arm when I lace a new rim to an old hub. You may be able to fix it by re-doing the spokes (assuming these are spoke wheels). OBTW, the adjusters for chain won't change the position of the top of the tire in relation to the frame.
One more thought on the CB750, there are different size spacers for the sprocket hub, inside & out. Make sure you have the correct ones for your year. As well as the one outside the brake plate.
I do remember there was an issue with original comstar wheels. Steel spoke plates & aluminum rim band didn't work well together. They had a bunch loosen up. Newer ones are all aluminum. That shouldn't affect spacing though. I'm still thinking that the axle spacers are in the wrong spots.
I looked @ your pics again & I think I can see witness marks from the seal on the spacer on the right (brake side), which means that's the one that goes in the sprocket carrier on the left. It should be shorter the the one that is used outside the brake plate.
The wheel doesn't have to be centered in the swingarm, it has to be centered with the frame, and those are'nt always the same. Unless the bike has crashed hard tge swingarm us probably okay.

The most important thing is that the front wheel us in line with the back wheel. With the bike standing up straight and the bars pointed dead ahead, stretch two tight strings so that they're parallel with the rear tire. Since the back wheel is wider, there will be a space between the front tire and the string. That space should be the same on both sides. If it's not, adjust the alignment of the rear wheel and try again.

An aside: When I was a kid I wadded up a GS550 and ruined the frame. I got a new (used) frame and forks and rebuilt the bike. I soon discovered that the swingarm was bent. I could barely get through a right turn without losing the back end. thtough a left turn it might as well have been glued to the road. 😁
I have checked the alignment front/back and it is ok. I tend to point out one of my shock which is faulty and make the bike look bent when on the center stand. I will have anyway to take out the back wheel - tyre is shoot, so I would have a closer look at the assembly there ..
Not to be a pest, but can you explain how you are checking the alignment of the wheels? I suggest with the bike on the center stand, taking a very straight 8-foot 2x4 (or suitable straight edge) & holding it next to the back wheel, a few inches up & see if the space on each side of the front tire to the board is equal. Check on both sides of the back tire. Since the front tire is thinner than the back tire, there should be an air gap between the board & the front tire, & it should be equal on both sides, if the back tire is centered & aligned for the sprockets. You may have to accommodate the center stand with the board though, spacing or such. This job is easier in a bike lift that hold the front tire. No need for the center stand, it can be raised up. You just need a straight line across the back tire forward past the front tire to check the alignment out.