Sorry Scott, I'm 400 miles away from my bike, so it's a bit hard to go and check?
It's interesting that you say the OEM MC works well with a dual disc setup on a CB750, you're the first person that I think I've ever heard say that, but it may be that since the 1970's when we used to throw them away and fit GW MC's as part of the conversion, (which were only marginally better) the advent of braided lines and better quality pads has made up for their deficiencies?
"Modern" MC's are obviously much better than 1970's fare, I installed a GSXR750 MC (no idea what the piston size is, but I'm sure you can google it if you like) on my first BMW R100RS along with Brembo twin piston calipers, and on my first time out, inadvertently performed a "stoppie" and lifted my rear wheel off the ground when a car stopped in front of me with no notice and no brake lights working.
You're dead right that the stock calipers are the biggest culprit, but due to Honda's ancient design, they're also the hardest component in the brake "train" to replace, so that's why it's important to try to make everything else work as efficiently as possible.
I've got a similar problem with my 1994 Harley Sportster, similar to the problem I had on my shiny new CB750F back in the 1970's, the rear brake with it's twin piston caliper totally overwhelms the single piston front puck. I thought I'd found the answer with a used PM 4 piston caliper, but the caliper body just touches the spokes, and I don't have enough room to space the disc out further from the hub.
I did remember that I've got a box full of old Brembo twin piston calipers out in my garage though, so I might see what I can do with one this weekend when I'm back home. Cheers, Terry.