There are two versions of Power Commander, the street legal version and the bad boy "off road only" version. The street legal version doesn't allow for adjustments in the rpm/throttle position ranges where the emission rules apply, and the "off road only" version only allows for adjustments in those ranges after eliminating the O2 sensors. If you want to keep the sensors, the only change you would be able to make with either unit would basically be at wide open throttle and high rpm. The rest of the time, which is probably 98% of the average persons riding, the PCIII would just be along for the ride and serve no useful purpose that I'm aware of, which then begs the question "Why bother?". I personally believe the best approach is to use the bad boy version with the eliminators and then have it tuned by a good tuner. The next best approach would be the bad boy version with eliminators and a canned map.
They don't show a canned map for your exact setup, but there is one that is fairly close that you could use if you don't want to go with a full tune and custom map:
M818-017 l*Advanced Map*, Screamin Eagle 105th Anniversary edition, Vance & Hines true dual headers, Vance & Hines Classic slip-ons, Screamin Eagle air cleaner, Fuel table 1 is front cylinder
Jerry