Did you adjust the closed throttle position on the PCIII? I have seen these be off by as much as 9%. What that means is the PCIII thinks your throttle is open by that percentage which will through the entire map off.
Well, I learned how to do that, and did it. And it was a long way off. It's better, less popping on overrun for example, but still lacks low end torque, and mid range..... anything! Open the throttle at 3000rpm, it makes more noise, but doesn't do much. Get to around 3500rpm though, and it suddenly goes.
I tried another map too, but not significantly better, so I guess there really is no substitute for sticking it on a dyno.
My comparison for this by the way, is an 05 FLHTCSE2 that my firend has. SE Pipes, air cleaner, MoCo St1 download. Pulls like a train from 1500rpm, and just keeps going right through the rev range. Any of you guys who have had both an 05 and a CUSE find the CUSE significantly different as I describe? (Due to the larger throttle body maybe???)
I'm using the accelerator pump feature on my PC3 too - maybe I should try without...
Jim