Aeroelastic analysis plays a vital role in the design of hypersonic wings. The thermal flutter of hypersonic tail under different materials at different temperature is analyzed by using MSC.NASTRAN, and the hypersonic piston theory is used for the modeling of supersonic aerodynamic loads. The research results showed: nature frequency is reduced as temperature increased, elevated temperature tend to reduce model stiffness due to changes in material properties and development of thermal stresses. Increased temperature will decrease the flutter velocity, flutter speed of tail is different with different material of titanium, but the trend and the value of variety of flutter speed are same as temperature increase. When material is different, the value of variety of flutter speed is also different.