use the in tank pump. the primary pump puts out like 40 psi. the in tank pump puts out around 5 psi. get rid of the primary EFI pump.
The pumps are regulated via voltage or current aren't they? usually on a relay maybe that is the answer? You could run a toggle/pot to turn the pump up or down for demand, or if you could wire a pressure sensor on the return line you could make a small circuit to do it automatically for high boos/high fuel situations.
The pumps are regulated via voltage or current aren't they? usually on a relay maybe that is the answer? You could run a toggle/pot to turn the pump up or down for demand, or if you could wire a pressure sensor on the return line you could make a small circuit to do it automatically for high boos/high fuel situations. 
the pumps run or dont run, theres no half way, its either on or off. the regulator on the fuel rail dictates how much fuel pressure the pump makes. and for boosted apps, usually a RRFPR is used to increase fuel pressure with boost pressure.