Have you removed the stator before trying to get the bike running?
Did all wires go back correctly. I was rushing some months ago and mixed up the wires and blew my Stator.. Only charged with lights on..
Is it wired up according to the following diagramme? I take it your's has electronic ignition ??
ftp://blurredmanswebsite.ddns.net/Vehic ... TZ_251.jpg
Also.. Does it not charge with the lights on too? If it doesn't, then it 'could' be regulator.