In a method for applying distinguishing markings to a marijuana bud, one or more indicia are directly applied to an irregular outer surface of the marijuana bud. The indicia may be applied to the marijuana bud by spraying, stamping or dipping the marijuana bud with a liquid marking composition including a liquid base and a colored substance. In the method, the bud may be moved along a conveyor with a plurality of other buds, and the liquid marking composition is sprayed directly onto the irregular outer surface of the marijuana bud from spray nozzles located above the conveyor. An apparatus for applying indicia to a plurality of marijuana buds includes a conveyor having a plurality of laterally-extending dividers spaced apart along the moving direction. The dividers define a plurality of channels, each having a width sufficient to closely receive a marijuana bud.