First off this is a brand new 09 vulcan 500 bought it with zero miles on it, currently reads 200. I took the bike in a few weeks ago to get some dunstall pipes put on and rejet. Bike was running perfectly fine till about a week ago. Then it started acting weird. When I accelerate it get's real jumpy and feels like a loss of power for a split second and it will do it a few times then back to normal. Happens from first to second, and up. Also happens sometimes if I am just in first gear like when I start off from a full stop. Also once in a while Ill go to start her up put the key in all lights come on hit the ignition then it just shuts off only happens every so often.
Anyone have any idea what the problem could be?

 

One word - WARRANTY

That's what it's there for... take the bike back to the dealer and explain what is happening. Don't jump all over anyone because the bike is new, keep cool and act like they're your friends. If you do, they may just become friends and that's good. They may have seen your problem before and be able to take care of it quickly. Regardless, they usually want to keep you happy, you may have friends who could buy from them too if they keep you happy. Plus they get paid reasonably well from Kawasaki if it is warranty work they may have to do. I doubt the pipes have anything to do with the problems, especially if the shop put them on.