The invention discloses an intelligent transformer station cross-interval MU synchronous recording method considering a delay compensation characteristic. At present, recording information of a fault recorder in an intelligent transformer station is information after interpolation processing rather than original signals, and the problem that fault recording information is not strictly accurate exists in practical application. On the basis of considering inherent delay of merging units at different intervals, the intelligent transformer station cross-interval MU synchronous recording method selects a main MU channel as datum reference, and further corrects cross-interval MU channel delay compensation, thereby realizing accurate extract of original fault information, and facilitating improvement of efficiency and accuracy of fault analysis. At the same time, a fault recording device recording configuration file value modification method considering delay characteristic compensation is proposed, and subsequent computational analysis is not influenced on the basis of keeping original recording information, thereby making up for the defects of an existing recording method, and the method is of positive reference significance to safe and stable operation of a smart power grid.