The axis layout of the newly-built navigation buildings of the built high dam junction in mountainous area is limited by conditions such as the narrow river channel,high water heads，the discharge of power station ,and existing buildings. In view of the problems,based on the new navigation building project of Baishi hydropower station in Qingshui River,Guizhou Province，using the technical means of 1:100 normal integral hydraulic model and self navigation remote control ship model,the navigation water flow conditions and ship navigation research and optimization of the multiple axis layout schemes are carried out. The test results show that the navigable flow condition and ship navigation state of the right bank axis layout scheme are good,which is the recommended scheme. The research results have solved the key problems of the project,which can be used for reference for the new or expanded navigation building projects of similar high dam water conservancy projects.