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The IEEE 1588 Precision Time Protocol is used to achieve synchronization among the long-distance instruments in distributed network measurement and control system. On the basis of analysis of the IEEE 1588 clock synchronization principle, a method is proposed to implement high-precision IEEE 1588 clock synchronization based on the embedded Linux device. The dedicated PHY chip DP83640 is used to time stamp the PTP massages in physical layer, the network device driver and the PTP hardware clock control driver is designed, and the IEEE 1588 protocol software is implemented using the Linux system standard API in user space. Experimental results show that the clock synchronization accuracy can be stabilized within ± 100ns when two devices are directly connected.