one would reason that you created the problem when switching the bars. given that, i would assume that you pinched the ignition circuit wires somewhere (bl/wh), or hooked them back up wrong in the headlight bucket. power is provided constantly to the switch as long as the key is in the on position. the fact that is is blowing in the run position means that the short is somewhere between the switch and the coils.
i would start by removing the right side hand control, and inspecting the wiring for pinched or bare spots. it the black and white wire you're looking for. did you run the wiring back through the bars, or did you re-route them externally? the short could be in the bars somewhere.
if everything looks fine there, i would inspect all of the black and white wire connections in the headlight bucket. look for something incompletely connected and possibly touching ground somewhere. reinspect all green, black and black/white connections while you're in there.
as for the headlight--do you have a 12v test lamp? i'd start by testing for power at the blue and white connections, just to make absolutely sure your bulb is not the problem. there is a wire that feeds the hi/low switch in the left side hand control (can't remember the colors off the top of my head..red/green maybe?). if this is not connected properly in the bucket, you won't get power to either.