Check the fuse then check the brown wire coming off the taillight, then check the green wires coming from the tail lights.
clean up the connectors as you go and solder any inline splices you encounter in the harness.
If it all worked before you tore the fairing off it will work again, just take your time, study the schematics and be meticulous.
Do the tach and speedo lights work? if not look at the brown and white wire in the head light bucket.
The orange wires are your left turn signals
the light blue wire are the right turn signals
also look closely at the male ends of the bullet connectors, sometimes they are only holding on by a strand or two of copper.
good luck.