The invention provides an automatic cigarette sorting system. The automatic cigarette sorting system comprises a box opening subsystem, a cigarette replenishment subsystem, a sorting subsystem, a coding subsystem and a packaging subsystem; the box opening subsystem automatically opens a cigarette box and takes out cigarettes in the cigarette box from the cigarette box to a cigarette temporary storage mechanism of the box opening subsystem; the cigarette replenishment subsystem conveys the cigarettes from the cigarette temporary storage mechanism to a horizontal cigarette bin of the sorting subsystem according to a cigarette replenishment control signal and performs automatic replenishment on the sorting subsystem; the sorting subsystem automatically sorts the cigarettes in the horizontal cigarette bin according to the order information sorted to households and conveys the sorted cigarettes sorted to households to the coding subsystem; the coding subsystem performs coding on the cigarettes sorted to households and comprises a conveying mechanism, an identification mechanism, a query mechanism and a laser coding mechanism; and the packaging subsystem packages the coded cigarettes. According to the automatic cigarette sorting system, by means of a method, automatic box opening, automatic replenishment, automatic sorting and automatic packaging in the whole sorting process of the cigarettes can be achieved, automatic collinear sorting and packaging of the standard cigarettes and the fine cigarettes can be realized.