A method and a system for rectifying a distorted fingerprint are provided. The method includes following steps. A feature of a distorted fingerprint is extracted, a reference distorted fingerprint whose feature is matched with the feature of the distorted fingerprint is searched for in a reference distorted fingerprint database, a dense distortion field of the reference distorted fingerprint is obtained in the reference distorted fingerprint database and the distorted fingerprint is rectified to a normal one according to the dense distortion field of the reference distorted fingerprint.