If you are using high-z injectors then don't bother removing D100 for now because it makes no sense to PWM them!
And if you go for lowZ injectors in the future then you could sidestep the whole PWM-ing issue by using resistor packs in series with the lowZ injectors and treat them exactly the same as high-z injectors.
The chances are that yours won't have D100 on it anyway, as the link refers to something from early last year. I expect this batch of boards will have been used up by now!
In short, if you've got an assembled controller on the way, then you shouldn't have to worry about doing anything other than taking a look inside because of curiosity
Also, don't forget to put a transient suppressor diode in the flyback wire. This further enhances the control of high-z injectors.