To ensure correct and timely implementation of enterprise internal control, it needs the integration of idea of internal control and enterprise management, so we should ensure am appropriate business process model in technology. Workflow mining technology and its framework provide the authenticity and robustness of business process, and they can be well integrated to complex internal control environment. This paper explains the current research of enterprise internal control and its corresponding models. The working principles of workflow mining, especially for system logs data pre-processing, mining algorithms and intermediate model subsystem design are also discussed. Then based on the analysis of above theoretical knowledge we propose the business process reengineering framework of data mining model under enterprise internal control environment. The feasibility and correctness of internal control system model is verified by case study.