I was afraid that might be the case. Must be an OEM special pump too, the model code isn't really telling me much, except it is a 90 series, right hand rotation and 100cc per rev.
Next thing I would suggest it to grab some #16 caps and plugs, disconnect the drive hoses at the traction control valves and cap everything off. I like to leave some hose attached to the pump ports, just gives it a bit of dampening if you will because you're deadheading the pressure lines. Just start it up in neutral and look at the charge pressure, if it doesn't come up with the main pressure lines capped off, the problem is in the drive pump/integral charge pump.
If the charge pressure does come up to snuff at this point, gingerly try the propel and see what you get. Should be perfectly safe but this always makes me nervous with the lines capped off so I like to ease into it. The multifunction valves in the pump will destroke the pump if you do get pressure and if you get a spike they also act as reliefs. If everything comes up to book spec with the lines capped, then you'll need to figure out which motor is bypassing internally but that should be just a process of elimination at that point.
By the way, you guys did fill the pump case with oil before starting, or bleed the air out until it was full if the tank floods it? Have to ask, I forgot once, wasn't pretty.