Have you walked through all of the green light, yellow light, red light settings? If you pipe is already installed then once you go through the tuning using the lights you should be ok. At that point ride for a while and see what you think. You can go back and keep inproving by using the yellow and red POTs. The yellow is upper RPMs and full throtlle (fuel Pump adjustments). The red POT is fuel/air mixture just like on a carb.
Let me know if any of this helps. I sell performance packages for vehilces and have done alot with dobeck.