Remove all the hardware. The fact you wanna change pups and knobs make it easier. Desolder the pups, knobs and selector switch. Make it as bare as possible. You should even unscrew the neck if it is possible. I would recommend using those type of lacquer where you can paint one, not those spray one. Spray one, technique must be swee one. If not, the lacquer applied will be uneven.
Since you're gonna change the tuners, remove the tuners and then tape the neck at the nut at the first fret/nut with masking tape. Apply coats to body and headstock as you see fit. I think you also need to leave it to dry between coats if you want those high gloss finish, and it's quite a long time to dry.
Nice inlays, by the way.