Motorcycle theft is one of the eight most frequent types of crime in Indonesia in 2024, with a total of 19,057 reported cases. Based on data from Pusiknas Bareskrim Polri, 38,438 cases of motorcycle theft were recorded from January to November 2023. This condition indicates that the existing vehicle security systems are still unable to provide optimal protection, as conventional systems such as ignition keys and alarms are easily bypassed by criminals. Therefore, a more advanced, personalized, and highly protective security solution is needed. This study aims to develop a fingerprint-based motorcycle security system that can only be accessed by registered users and to design a prototype that integrates a fingerprint sensor with a microcontroller as the main control unit. The research method used is the prototyping method, which includes identifying system requirements, designing the initial hardware and software, developing the prototype, conducting functional testing, and evaluating the system. The main components used include a fingerprint sensor, a microcontroller, and actuators as the mechanism for the vehicle locking system. The test results show that all components and features of the system function as designed. The registration and deletion of the master fingerprint operate accurately as the main authentication mechanism. User management features—such as adding and deleting user fingerprints—also function properly, demonstrating the system’s capability to recognize and verify biometric data accurately. In addition, the mechanism for opening the motorcycle seat or storage compartment through fingerprint authentication operates smoothly and consistently. Overall, the developed system performs stably and accurately, providing a higher level of security compared to conventional systems. This proves that biometric technology based on fingerprint authentication is effective for implementation as a modern and efficient motorcycle security solution.