Container yard daily production organization has the characteristics of microanalysis and detailed information, but in previous simulation studies, details about container yard have only been described roughly, and the entities have been simplified. In this case, the paper presents the concepts about CYMSM (CYMSM: Container Yard Microanalysis Simulation Model), analyzes characteristics of CYMSM, makes general studies on CYMSM construction method, and describes the four elements separately, which are Entity, Event, Activity & Process (EEAP). This paper explores the operation rule which influences the validity of CYMSM, based on this, it has created a relative simulation mechanism. This paper has also offered the evaluation index and adjustment mechanism of container yard simulation model based on the microscopic analysis. The results of study can provide evidence for building container yard operation simulation system. And this system, for the purpose of offering strategy supports, has been applied to certain container yard in Shanghai, thus proving the effectiveness of this method.