Based on the comprehensive experiment of a single well stratified vacuum pumping, using a new stratified pumping test device, the test method was improved to make the stratified pumping work time saving and efficient, safe and reliable, economical and practical. Comparing the process monitoring data with conventional monitoring data, the influence of formation and vacuum negative pressure effect to the pumping is studied, by the detailed analysis on its mechanism, the variation characteristics of seepage field around the vacuum stratified pumping well pipe are obtained. The comparison experiment proves that this stratified vacuum pumping process has obvious advantages in improving the water yield of single well and well washing effect.