Etonia Creek, also known as Etoniah Creek, is a stream in Putnam and Clay counties in Florida. It is the major tributary of Rice Creek, which is a tributary of the St. Johns River. The upper or western part (150 square miles (390 km2)) of the stream's basin, the Upper Etonia Creek Basin, contains about 100 lakes. Many of those lakes do not have outflowing streams. On leaving its upper basin, Etonia Creek flows eastward, and then southeastward to its juncture with Rice Creek.