Abstract: The upper reaches of the Yangtze River are characterized by a complex channel shape, numerous curved shoals, and significant variations in water level. The conditions for constructing the waterway are complex and changeable. In recent years, the Chinese government has increased investment in waterway construction in this area. However, the new cross-river bridges often face problems such as limited site selection, limited span and scale, a high risk of ship collision, and deteriorating navigation conditions. These issues have an irreversible impact on navigation development. Therefore, it is urgent to develop a technology to guarantee bridge navigation safety that is suitable for the complex waterway in the upper reaches of the Yangtze River. Based on the navigation conditions of complex bridges in the upper reaches of the Yangtze River, this paper proposes a safety evaluation system for full-cycle bridge navigation, analyzed in five stages: planning, design, construction, operation and demolition. This paper also proposes a key technical system for full-cycle bridge navigation safety, adapted to complex waterway bridges in mountainous areas in the upper reaches of the Yangtze River. This technology can provide guidance for navigating bridges over complex waterways in the upper reaches of the Yangtze River and is of practical significance.