My dealer printed me a sheet telling how to fix this.
You basicly take the large vacume hose, I believe the right side of the carb, and cut off 6" then you reroute it through the tube in the support for the fuel tank. The other two lines can run where they are without a problem.
I did this and had no problems last weekend with high water.
The support I'm talking about is Number 6 on Page 14.
http://www.polarisindustries.com/img/partsManuals/9917576r01.pdf
I'll double check on the line when I get home later but I dop beleive it's the one on the right. IF I had a digital camera I would send a Picture but I'm still using a 35mm.