hmmm - that is some serious scoring. At a guess I would reckon 1mm o/s pistons would sort that out - but you need to take the barrels in to a bike specialist and get them to run the micrometer over the bore to confirm - remembering that 1mm o/s is only 0.5mm all the way around - if those score marks are deeper than half a mm - then you may need to go bigger again.
Wiseco do plenty of piston kits, so do JP pistons. All sourced from the US, you can buy Wiseco stuff from the aussie distributor (Serco) - but I generally just go straight to the US for parts......
I couldn't tell from the photo of the rings, what the difference with the #3 oil rings was ? One thing with the #3 piston & rings - they tend to wear out sooner than the others, because the #3 crank-web has the primary drive cut into it, directly under the #3 piston......this means a shitload more oil-fling in the #3 piston - and more work for the rings from below as well as above. #3 piston is generally the first piston to fail in old z motors.
Having parts of the CCT floating about in the sump - is normal

- Most times it will be the front tensioner, which is only a small piece that tensions the front lower run of the cam chain. These normally fracture at the 90-deg bend where the tensioner bolts into the barrel - the longer front section then just drops into the sump - sometimes in one piece - sometimes in more than one piece

I would take the upper case into a thread specialist and get them to remove the busted bolts electrically, this does the least amount of damage to the threads in the cases. Important to have these working properly - unless you like kick-starting your bike (and on these old rigs - its a pretty cool thing to be able to do

)