A stencil printing process (SPP) optimization problem is studied in this paper. Due to the limitation that neural network requires a large number of samples for the accurate model fitting, a two-stage SPP optimization method is proposed. The design interval can be reduced with small sample by using neural network. In this reduced design interval , response surface method is adopted to obtain the accurate mathematical SPP model. The concept of confidence level is introduced to make the proposed model robust. An interactive method is used to solve the model. The proposed method is compared with the one-stage optimization method and the results show that the proposed method achieves a better performance on each objective.