All that I'm saying is that the factory 2 into 1 exhaust is not going to be any good for big power. The 2 into 1 into 2 seems to run better on the dyno and on the street. The best system is going to kill the kitty and balance the pipe lengths between the heads and mufflers. It's all a balance of what you like from a looks and sound point of view for most people. As the best performing system may not be what people are really after.
Kinda like what the factory did with their mufflers.
The right muffler has a different internals, and more restriction than the left, presumably to "balance" the flow out both mufflers.
The factory 2 into 1 has the biggest restriction at the 1 3/4 outlet to the muffler, like Steve said, anything over stock will choke. Adding free flowing mufflers will probably not help much, except in the noise department. Take a look at the Harley "Supertrapp" muffler for these bikes, a little longer than the duals, but still 1 3/4 inlet.
Speculating a little, but, dyno time will prove out results.