In order to improve the efficiency of separating, rethreshing and cleaning process of rice stripper threshed materials, the laboratory experiments were carried out on the separating components of a novel version of vertically centrifugal separating-rethreshing-cleaning apparatus that can recycle the threshed materials invariably. With feeding speed and auger rotating speed as influencing factors, separating rate, rethreshing rate and braking rate as experimental indexes, response surface models of performance indexes and working parameters were obtained through quadratic orthogonal rotation center combination experiments. By using the Design-Expert software, the interactions between each parameter and the performance indexes were analyzed. It can be seen that the auger rotating speed had a greater influence on the separating rate, the rethreshing rate and the breaking rate than the feeding speed. Multi-objective optimization results showed that the optimum working parameters were as follows: the feeding speed was 1.226kg/s and the auger rotating speed was 541.4r/min. The expected results of separating rate, rethreshing rate and breaking rate were 90.4%, 66.1% and 0.77%, respectively, and the verification experimental results were 89.4%, 65.2% and 0.83%, respectively. The results showed that the centrifugal separating-rethreshing-cleaning apparatus had the advantages of high processing efficiency, small breaking rate and the ability to meet the handling requirements of threshed materials of stripper combine harvester for paddy rice.