The damage detection method using the extended Kalman filter(EKF) technique has been continuously used since EKF can estimation the responses of the damaged building structure and the stiffness of the structure. However, in the use of EKF, the requirement of setting the initial paramters P, Q, and R has caused the divergence and instability of the state vector, and various researches have been conducted to determine theses parameters. In this paper, adaptive extended Kalman filter(AEKF) method is proposed to solve the problem of setting the values of P, Q, and R, which are important parameters determining the convergence performance of the EKF state vector. By using the AEKF method proposed in this study, the P, Q, and R parameters are updated every k steps. The proposed algorithm is applied for the estimation of stiffness and the damage detection of 3-DOF problem. Based of the verification, it can be found that the selection process for the values of P, Q, and R can improve the convergence performance of EKF.