At present, financial management systems have been applied in many universities. University’s usage of the financial management system to achieve ideal results in formulating financial plans, strengthening financial control, and improving the efficiency of financial management. The healthy and long-term development of a university is inseparable from scientific financial management methods. With the rapid development of computer technology, the use of financial management tools is an effective way to improve the quality of financial management. The article applies computer network technology to the financial management system. The main functions of the financial management part and the accounting management part of the system are set as data recording and data statistics display. The financial management system combines the financial management of the university with the informatization of the industry, which realizes the computerization of accounting, and replaces the traditional manual financial mode. The results show that the average response time, data throughput per second, and number of requests per second of the transformed system are higher than those of the untransformed traditional system, and the ratio is about 5% higher. This shows that the financial management system constructed by the computer network technology can play a certain role in the operation of the university.