It's hard getting used to the run command, so movement can feel clunky and mechanical at first. I assume that it just takes some time to drill into your muscle memory, and will take me a while to get there. Although, part of me feels like making run a three button command instead of a run-button when the switch stance button is over there doing nothing was just a way to up the game's execution requirements just for the sake of doing so. Some specials use the stance button, but they could have just as easily used two attack buttons like a lot of strings do.
But, it is what it is.