My advice to you , You said you dont have any experence in the "internal" motor department It seems you have a basicly mechanical knowledge on the rest of your quad. So I would first things first invest in a repair manual thats number one , Next your are going to want to make a list of all the detailed parts you need and services you are going to need, for example you are going to need the cylinder, rod, haveing your cylinder resleved to the specific size ect.ect. Next after you made a complete list of what you need your going to have to start looking for parts and find a place that will do your resleveing and mechine work done.Once you are done finding out where you are getting the needed clyinder bore ect work done you can buy your parts. once you have all your parts send out the parts that need altering to a good shop, and when they come back your ready. I think with a manual and a good ridding buddie your your dad or someone with some understanding of what your doing between you him/her and your trusty manual i think you won't have trouble making this possible and I know alot of people on this site will be glad to help you as much as they can. Just remember take your time.
~Eddie