A doffer assembly for a cotton harvester having at least one drum and a spindle. The doffer assembly includes an outer housing and a plurality of doffers adapted to remove cotton from the spindle. The assembly further includes a drive unit coupled to the outer housing for rotatably driving the plurality of doffers independently of at least one drum and spindle. A drive shaft is rotatably driven by the drive unit, and an interface adapter is coupled between the drive shaft and the plurality of doffers. The drive unit may be an electric motor, hydraulic motor, a mechanical drive system, or a combination thereof.