The goal of this study is to investigate the effect of non-synchronous sensing when using wireless sensors on structural identification and to attempt correcting such errors in order to obtain a better identification result. The sources causing non-synchronous sensing are discussed first and the magnitudes of such synchronization errors are estimated based on time stamps of data samples collected from Imote2 sensors; next the impact of synchronization errors on power spectral densities (PSDs) and correlation functions of output responses are derived analytically; finally a new method is proposed to correct such errors. In this correction method, the corrected PSDs of output responses are estimated using non-synchronous samples based on a modified FFT. The effect of synchronization errors in the measured output responses on structural identification and the application of this correction method are demonstrated using simulation examples. The simulation results show that even small synchronization errors in the output responses can distort the identified modal and stiffness parameters remarkably while the parameters identified using the proposed correction method can achieve high accuracy.