The Bemboka River rises in the Kybeyan Range, that is part of the Great Dividing Range, about 18 kilometers east of the village of Nimmitabel; and flows generally south southwest, south southeast, and east southeast, joined by three tributaries including the Nunnock River, before reaching its confluence with the Tantawangalo Creek to form the Bega River at Morans Crossing, adjacent to the Snowy Mountains Highway.