Actually i think i ended up answering my own question. With the exhaust calc Ed posted and this program, I should be good.
I just bought it and it looks like with was definitely worth the $23. I can input cylinder specs and then play with the port timing and shape. Then if i need to input a port map, there is an analyzer app that will allow me to scan in a port map. So cool!
I will probably contribute to the Minarelli port maps on the wiki with this info, since the info seems to be lacking.