Information system is a comprehensive system of student information management and information processing. In the process of system optimization, the data of information system should be analyzed and optimized. Therefore, intelligent methods can optimize the overall structure of the information system and realize the comprehensive analysis of information. The MATLAB simulation results reveal that, In the process of information management, indicators such as data structure complexity and data compatibility have been greatly optimized, and the optimization degree is greater than 80%. To meet the actual needs of students’ information management, through the comprehensive development of information, we can find the directivity and directivity of the system. The directivity of students’ information processing is consistent, which shows that the information system can meet the needs of actual information.