Thanks for your responses guys, well some more symptoms, on just about all starts it seems really rich, I never have to use the choke. Just today on my ride home from work, I stopped to cool off for a few minutes, and when I went to restart it would start and then would only run if I kept the throttle open by hand a little bit, I would have to work the throttle to try and get the thing to rev, once it revved she would pipe up and settle back to a steady idle of about 2500. Until that point though if I let off the throttle she would stall.
I think I'm going to have to give her a break for a day and drive the cage so I can dissassemble the carbs and go over all of the settings. My first point I will be looking at will be the floats, those are the only things that I have remotely touched and that was just during dissassembly, didn't touch the tounge that controls their height.
She seems to run alot better in the cool morning air.
Jay I invested in some tools for measuring the bores, I had to have measured each cylinder at least 2 dozen times in various positions at different clocking in each cylinder
(more than just the forward to back and side to side at the three different heights in the manual), they were pretty damn round, within a couple thousandths of an inch all around the cylinders and within stock specs. After honing of course. My unknowing mistake that I was told I shouldn't do was do a comp check after she was reassembled but before the rings were seated, she has good compression ~170-180psi on all 4 after a 2-3 seconds of cranking.
Thanks again for bearing with me guys, this is my first foray into the internals of the I.C.E., I have learned a lot.