The short stroke 750 engine was not available until late in the 1973 season, when it was used in the 1973 F750 JPN Monocoque. It was advertised in 1973 in one of the sales brochure as available on special order for installation in the Commando Roadster, although there has been a lot of argument over the years about whether any Commandos with this engine were ever sold to the general public. None of the roughly 120 factory Production Racers (Norvil Racers, Yellow Submarine, or whatever you choose to call them) were offered with the short stroke 750 engine, although some racers (including me) swapped them into their PRs when the engines became available. This engine was standard in the Thruxton Club Racer that was offered in 1974, but very few were sold.
That's one of the reasons that AHRMA outlawed short stroke Commando engines in the Sportsman 750 class back in the '80s, but did allow them in the F750 class. There was a lot of argument about it in AHRMA, but based on the information available, including statements by Brian Slark, they determined that the engines had not actually been available in legitimate production bikes.
FWIW, the short stroke 750 cylinder was just a normal 850 cylinder, with no other special features, although the factory did supply some to their race teams with nitrided bores.
Regarding adding through bolts to the conventional 750 cylinders, I've heard that mentioned, but have never seen one. All the Commando Production Racers I've ever seen, as well as all the ones I've seen in photographs, including the ones the factory raced, had the regular studs and nuts at the base of the cylinder. Some of the aftermarket alloy cylinders used visible through bolts, including the Drew Robertson cylinders I sold back in the '90s, like the one below. You can see the through bolts in this picture.
Ken