The invention provides a pediculus arcus vertebrae internal fixation operation navigation system based on structured light scanning. The system comprises a structured light scanner, a dynamic base, operation instruments and a computer provided with an operation navigation software and a sick bone CT (Computed Tomography) three-dimensional model, wherein during the operation, the dynamic base is fixedly arranged at a sick bone; the structured light scanner is utilized to scan the sick bone so as to obtain a structured light three-dimensional image and is subjected to surface rectification together with the sick bone CT three-dimensional model; a camera on the structured light scanner is utilized to track the operation instrument, so as to obtain the position relations of the operation instruments relative to the dynamic base and the sick bone three-dimensional model; and the position relations are displayed on the computer provided with the operation navigation software in real time, so as to realize operation navigation. Compared with similar systems, the operation navigation system provided by the invention does not require an infrared navigation position finder to participate in tracking during the operation, can be used for improving the navigational fixing precision, simplifying the operation navigation process, lowering the complexity and cost of the whole system and occupying less space of an operation room, and can be conveniently used by doctors.