The airfoil flutter problem of the hypersonic vehicle and the relation of the damage it causes with the airfoil stress are analyzed. Firstly, the binary airfoil model of the hypersonic vehicle is studied, and the dynamic model of airfoil flutter is established. The unsteady aerodynamic force of the wing is calculated out by using the piston theory, and an analysis is made to the flutter of the wing at a certain flight speed. The influence of airfoil flutter stress on the damage caused by wing flutter is studied by using the stress-strain (σ-ε) model, and the strain and fatigue life (ε-N) model. The simulation results show that wing flutter damage is closely related to the amplitude of the flutter, which provides an important reference for the wing reliability analysis in engineering practice.