According to the working principle of the two-actuator fuel injection system, the available control modes were discussed firstly, the delay time from control signal to fuel injection was analyzed, variation characteristics of NOP at different speeds were figured out and injection characteristics were explored then, the experimental results showed that the difference between SV and NCV control angle could change the value of NOP, NCP and MFIP effectively. Finally, the control algorithms were explored emphatically, calculating method for NCV desired SOI and durations were introduced and the control strategy of two-actuator fuel injection system was proposed, and the NOP control MAP that reflected it tendency with different speeds and the control angle difference was analyzed, which provided the basic theory for vehicle purpose.