I'm not sure, but I think its the software. Pre 08, I believe you're able to use ECM Spy to fetch and burn a map. I think that after 08, you would need another program called TunerPro which I believe would work with all the bikes. (though I think theres a shortage of tuning info for the 1125 R/CR right now.)
A member by the name of the Octopus schedules Webinars on tuning your buell. There are others that are well versed at Tuning also.