The invention discloses a processing method aiming at overtime unconfirmed warning information of an automatic scheduling system. The processing method includes judging the type of a warning to determine whether the warning is important or not and starting timing warning appearance time; if the warning is still not handled when set time is up, sending a prompting warning to a responsibility area and a responsibility area of an upper-level scheduling mechanism, judging whether division of the responsibility area is incorrect or not by a controller, if not, adopting specific approaches to analyze specific problems, and if yes, redividing the responsibility area prior to returning to the controller. The processing method has the advantages that monitoring is performed aiming at important warning prompting, so that monitoring personnel can discover problems timely and respond correspondingly to prevent fault magnification; incorrect or omissive circumstances occurring in the process when maintenance personnel of the automatic scheduling system divides the responsibility area can be timely found and corrected through the method, so that omissive reporting and false reporting of warning information are avoided.