They would be nuts to not enlarge the size of the pipe like Jardine has done to allow more air flow. Now this is just me, but if it were me and I was going to drop this kind of coin just to improve the flow of 2 of the factory tubes would not be money very well spent.
If I were having a custom header built, it would be to increase as much air flow thru the engine as possable and then have them build me a custom can that could be tuned. Now you are increasing the air and you would have the ability to start adding more fuel thus increasing H/P. But that is just me. I would be very surprised that you will see much of an H/P increase just by cleaning up the air flow on these 2 cylinders that aren't flowing well from the factory. But hay, that's just me typing out loud.
Big T