I used to ride a 2001 XLH883.
The two best XL systems on the dyno were the Supertrapp 2-2 high pipes and, believe it or not, modified STOCK headers with Cycle Shack slip-ons.
Eliminating the crossover pipe hurt midrange power and didn't help in peak power either. The modification was making sure the flow wasn't restricted from the ehaust port--the crossover on a rigid-mount XL is a few inches away from the head. In order to save money H-D quit "fishmouthing" the crossover pipe where it meets the header, just leaving the square end of the crossover pipe protruding into the headpipe. Removing this protrusion helped a LOT. On my bike, the front headpipe had about 1" of crossover pipe intruding--ouch.
IMHO, the reason people think removing the crossover makes more power is that it --seems-- to pull harder in the upper rev range, because it's pulling less in the midrange. Not a good mod.