In order to improve the picking efficiency of pharmaceutical e-commerce logistics enterprises, the whole zero batch picking method of picking orders is put forward in this paper according to the information deviation in the picking process.The full container specification and medium package specification of pharmaceutical products are introduced as the basis for picking orders. A three-stage order batching program with box rule constraint was designed to realize order batching and a minimum standard time model based on Modified Coefficient and Slack Time was constructed. The timeliness before and after order batching is compared and analyzed to verify the necessity of order splitting and the validity and feasibility of the model. Combined with the actual data of a company, the superiority of zero batch picking order is verified. This study found that the picking distance was shortened, the picking efficiency was increased from 48.8% to 65.6%, and the picking time was shortened from 5.6h to 3.8h, which improved the operation efficiency of the distribution center of pharmaceutical e-commerce logistics enterprises as a whole.