As the non-solid-earthed network fails, the zero-sequence current of each line is highly non-stationary, and the noise component is serious. This paper proposes a fault line selection method based on modified complementary ensemble empirical mode decomposition (MCEEMD) and the Duffing system. Here, based on generalized composite multiscale permutation entropy (GCMPE) and support vector machine (SVM) for signal randomness detection, the complementary ensemble empirical mode decomposition is modified. The MCEEMD algorithm has good adaptability, and it can restrain the modal aliasing of empirical mode decomposition (EMD) at a certain level. The Duffing system is highly sensitive when the frequency of the external force signal is the same as that of the internal force signal. For automatically identifying chaotic characteristics, by using the texture features of the phase diagram, the method can quickly obtain the numerical criterion of the chaotic nature. Firstly, the zero-sequence current is decomposed into a series of intrinsic mode functions (IMF) to complete the first noise-reduction. Then an optimized smooth denoising model is established to select optimal IMF for signal reconstruction, which can complete the second noise-reduction. Finally, the reconstructed signal is put into the Duffing system. The trisection symmetry phase estimation is used to determine the relative phase of the detection signal. The faulty line in the non-solid-earthed network is selected with the diagram outputted by the Duffing system.