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In order to extend the e method to general three-dimensional boundary layers, the conservation law of the imaginary parts for the wave parameters with a fixed wave vector is deduced. The compatibility relationship (CR) and the general theory of ray tracing (RT), which have been extensively used in conservative systems, are applied to a general three-dimensional boundary layer belonging to non-conservative systems. Two kinds of e methods, i.e., the eN-CR method and the eN-RT method, are established. Both the two kinds of methods can be used to predict the evolutions of the spanwise wavenumber and the amplitude of the disturbances in general three-dimensional boundary layers. The reliability of the proposed methods is verified and validated by performing a direct numerical simulation (DNS) in a hypersonic general three-dimensional boundary layer over an aircraft model. The results are also compared with those obtained by other e methods, indicating that the proposed methods have great potential applications in improving the transition prediction accuracy in general three-dimensional boundary layers. [ABSTRACT FROM AUTHOR]