I checked cam timing and its 100% stock, at least according to the cam gears.The AFR curve is pretty interessting, are they running lean from 5k to 7k RPM?
Can you give us some more details about what parts you have on your comparison bike?
It looks like adjusting the cam timing via the cam gears is allowed in the rules. I'm wondering if there is some dark magic going on here with overlap on the valves?
My old 390 was for sale on here with too much stuff to list really, dig that thread up and take a gander.
AFR isn't what I would call "lean" but its leaner in that range.