let me start by saying your build is good and any following sugestions are based only on how we would have approached a new build with a customer. It is not intended to be a criticism of your build.
Our cam chice would have been the 408 or 9B. Bigger motors require more duration. The pipe would have been the D&D Boarzilla. I like the Road Rage touring pipe because it is stepped and of similar design to the D&D. The Road Rage Dyna and Softail systems, however, are not stepped and simply may not have the total volume required for 113ci motors, especially with ported heads. We would recommend having the 50mm t-body ported by Baisley. The Fueling race parts can actually hurt hp/tq because it can take more energy to turn the pump.
Tuning may also play a part. The igntion tables can often be ramped up pretty good while tuning, which can increase tq substantially (assuming fuel is correct). But, with 9.6 corrected pressure (10.5compression/400 cam) could mean the timing is fairly retarted to prevent detonation. You have not given the numbers you produced, but if they are SAE 4th gear runs, they will show 4-8 less than STD 5th gear runs by comparison. Last, 6 speed equiped bike and 07L (06L Dyna's) will show 4-6 hp/tq less than 5speed models due to drivetrain losses, added mass and ratios. We would normally predict 120-125hp/tq for a 6speed 113 with Prostreet heads. For perspective, our magazine build 07 FLHX 113 with Baisley HYBRID heads, TM650 cams, Boarzilla and Latus throttlebody gave 135/129tq (STD/5th gear). We were expecting/hoping for 140-145hp 130-135tq.