This paper introduces an implementation method of Embedded Automatic Fingerprint Identification Systerm(AFIS), dealing mainly with hardware components and software modules based on ARM9. Hardware system consists of ARM9 series S3C2500, FPS200 sensor, memories, power supply ,communication interface, etc. System initiation, fingerprint sampling procedure and communication program are main modules making up of system software.The conflict of time-sequence between S3C2500 and sensor FPS200-one of the key links of the system, has been solved successfully. The system has integrated functionalities,such as fast sampling, communicating with upper and lower computers, establishing a complete and reliable platform for fingerprint image processing and identification.