Akrapovic Jetting??

Hi! so i'm trying to get my jetting right and have been having some issues..... If anyone out there could lend me some knowledge that would be awesome. The problem i was having was that the bike did not want to idle down using the 68s pilot jet, trying to adjust the idle air/fuel screw only seemed to make the engine run faster as i screwed it in so i moved to the smaller jet. This surprised me as it seems that everyone with this bike runs a 68s once its uncorked. If anything i'd expect to have to move to a larger jet to match the the high flow air filter and exhaust?? Any pointers would be appreciated! I've been checking the plug whenever i have the tank off and its usually a little on the darker side which is fine, I'm not too sure if thats a good indicator of the jetting at idle, it seems like its probably more of an overall sort of thing.

Is it possible that my exhaust needs me to run a smaller pilot jet than usual??

the details....
2003 XR650R, Uncorked
stock carb
UNI air filter (with stock backfire screen)
akrapovic full system
i also have a db dog baffle (part 8002) for this pipe as i was a little concerned for the noise and the sanity of my neighbours.

65s pilot jet
clip in 3rd position on B53E needle
175 main jet
idle air/fuel screw 1.5 turns out

most of my riding is under 1000 ft!