Thank you so much, that's great information, especially on the rockers. We managed to keep the valves altogether without any mixing of parts, but we've mixed up the rockers.
When disassembling it is suggested to keep the rockers, and shafts together as they came apart. If everything is now in a jumble, then using the parts with the least amount of wear is the next best option I suppose.
At some point in their development Honda changed the cam towers and rocker shafts to use two small bolts to keep the shafts from rotating. Do all your rocker shafts have two small threaded holes in them? Through some close inspection of parts you may at least be able to determine which rockers and shafts came from which head.
Also, the cam bearing caps that bolt on the cam towers should have letters stamped on them which correspond to letters stamped on the towers themselves. These caps cannot be mixed and matched between towers.