That is true but the question that arises is HOW the system determines pulse width. It can be formulated by many methods. I have seen some systems determine pulse width by measuring the voltage drop across a load resistor (current). Or it also can look at the duty time & logic state of a pre-driver IC to the final triac.
If it was calculated by direct current draw, it would indicate to me that some hardware failure has happened. (open injector, bad connector, open wire, blown triac, no B+ etc etc)
On the other hand if it looked at the logic state of a pre-driver and said the pulse width was "0", it opens the possibilities of software telling the system to run at "0". I would think there must be conditions within the firmware that must be met before the injectors will be instructed to open.
I can get carried away at time. I am not try to make something more complex than it really is, but just saying there are different ways to get to the same answer.
It sounds like you have a good plan with putting the system as close to factory stock until you get it started. That's the right way to approach it.