Deepening the reform of the judicial system in China and improving the unified management system for judicial authentication are important in promoting the overall law-based governance of the country. Straightening out the management system of forensic identification is the top priority to establish a unified management system for judicial authentication. In this paper, different management systems of forensic identification are compared and the current disadvantages in forensic identification in China are analyzed, including decentralized management departments, excessive marketization, unbalanced regional development, and insufficient research investment. Based on this, the feasibility and necessity of establishing an administration mode of medical examiner offices in China are investigated. Moreover, the operating mechanism and responsibilities of the medical examiner offices are elaborated. We propose that China should integrate its forensic resources in different departments and strengthen the forensic professionals to establish a unified medical examiner office system which is independent of the judicial system and covers the national, provincial, and municipal levels, thus to improve the authority and credibility of forensic identification. The medical examiner offices should be responsible for judicial authentication, scientific research, professional title assessment, personnel training, and for formulating technical standards and guidelines for forensic identification.