MegaSquirt (MS3) or Holley HP EFI

I honestly never thought about using the factory or the 46re. I have been thinking custom the whole time but may be over complicating. I guess part of my issue is that I don't have a distinct end goal in mind, which makes he whole thing complicated. Probably watch too many Sick Week videos LOL. Always wanted mid to low 9 second street car that was still comfortable to cruise around in. Wanting to have the framework in place to upgrade along the way.
I’m in the planning stages of a drag and drive car for myself currently as well, and I’ll be using a turbo magnum 5.9 with a tremec T56 magnum. But mine will be blow through carbureted. I’d suggest narrowing down the hard parts of the build plan (engine, trans, diff) then decide on electronics (efi, carb, aftermarket or factory equipment) and then ask the same questions.