Okay, got a call into the dealer and they are researching and calling me back. Looks like I'm going to need a new shifter if I keep the standard rails (A9733506) and maybe a new brake lever. I really like the large "car like" brake pad but that came with the kit but I'm not for sure it will engage before the top of the footboard and the only way I'll know is to do the entire install... A little too much trouble to discover the issue later!
So far, the dealer out of Michigan has been a total class act and I'm sure will come through. I've ask that they send the correct gear lever and brake lever and we will call it even. The "complete" kit was also to include a new side stand lever but I don't think I need a new one.