Keith,
The main multiplug for the regulator circuit is under the carbs. I haven't had mine apart recently but the 2 main wires from the regulator feed the battery. The positive through a 30 amp fuse (#11 in the fuse box) and the neg side runs through a plug to the battery. Make sure both are free from corrosion. I intend on getting under my bike pulling the regulator, splicing into wire number 4 coming out of the regulator and running a large gauge wire directly to the + lead on the battery. I might also splice another ground from the regulator directly to the battery.
Make sure the 3 wire feed from the alternator to regulator is free of corrosion at the plug also.