Heads; Trickflow, Edelbrock, Ford Racing.
Scat and Eagle have stroker kits. I am building a 514 for my truck right now. I'm using an Eagle kit. Good luck finding a EFI intake manifold. The truck manifold is too small for any kind of horsepower. You could have one fab'd or modifiy an aftermarket one like Edelbrock or Trickflow to receive injectors
Auto transmissions to use, C6, AOD (adapted), or even a built C4 using a bellhousing from a 351M-400M. Manual
trans; anything less than a Tremec TKO would be a waste of time