I maybe wrong. But, I'm of the opinion the only reason the stock air filter is the size and shape it is, is so that they could fit everything inside of it. They crammed a velocity stack, 2 breather tubes, and a sensor in. When you do the breather reroute, you don't need the extra space inside the filter.
I also think it looks like when Buell designed the system, the left side scoop could've been what was envisioned as a RAM air setup. Hence, the size of the air box overall. However cooling became more important. And in the later years, the hole got blocked off for more fuel capacity. There really wasn't a need a redesign the entire air box. Simply modify what is already there.
I'll be interested to see if Tone's bike performs any differently. Mine made no difference in performance at all. I do have the EBR Race kit which was designed with a K&N filter in mind. So, I just see the filter vibrating under the cover at idle is all. Once you get off idle it sits there smoothly. I'll only go back to the stock setup if I sell the bike or I feel nostalgic.