Sounds to me like a battery issue, If there's more than 14V and less than 15V, and its goin flat on ya, there's a prob with battery
Do your lights operate normally with ignition on? If not then your battery has prolly lost a cell, and will still appear to have normal readings, but its stuffed.
If you replaced the RR after you replaced the battery, chances are you have cooked a cell out of your new battery, thanks to the old RR.
http://www.nsr250.net/forums/viewtopic.php?t=7729
http://www.nsr250.net/forums/viewtopic.php?t=7692
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