Based on the characteristics of scientific drilling and the situation of the hole configuration of extra-deep wells in China， this paper sets the basic hole configuration and coring sections of China’s myriametric extra-deep scientific well. Combining the SG-3 borehole of the Soviet Union， the main borehole of KTB in Germany and the scientific drilling projects of China， such as the Continental Scientific Drilling Project No.1 and Songke-2 Well， the methods of deviation prediction， measurement as well we the deviation prevention and correction during full-depth drilling and coring for extra-deep well are elaborated. Finally， the overall scheme of the myriametric scientific extra-deep well， including the deviation control method and control index of upper well section and the drilling deviation correction and prevention technology and equipment of coring section are put forward， and the further research seggestions are posed.