So let me see if I can clarify. If you are looking at your bike from the rear, the wires on the right side are black which is ground brown which is your Hi intensity or Brake/turn and red is taillight or running light. On the left they are black which again is ground, violet which is hi intense turn/brake and red running light. The female connector on the bike has the same color scheme. The new boards wire color scheme is black , red , white. You would think the white would represent the brown and violet on the stock boards. The ground does not change so make sure when you plug the connectors together blk meets blk. now just take the pins on the right led board out of the connector and switch the so that the red goes to the the brown and the white goes to red. on the left led board take the red and position so it meets the violet and white meets red.
so in a nutshell switch the colored wires on the led board with wht representing brown on the right and wht representing violet on the left. Hope it helps.