On my '05 EC300, I have a head modified by R&B. I went from not having enough low end (compared to 2000 EC300) to having too much in certain conditions as described by the original poster. However, it's easy to tame the beast.
#1. I am dropping 1 tooth on the rear sprocket first. This will smooth the hit a little and make more use of the low end available for longer.
#2. I plan on trying a different needle. The LTR needle was great prior to the head work, but I now need smoother power after the head.
#3. My final thing to try will be the G2 throttle. I can't see this helping way too much with my riding style, but we shall see.
Mike Baxter