The detection of flaw echoes in backscattered signals in ultrasonic nondestructive testing can be challenging due to the existence of backscattering noise and electronic noise. In this article, an empirical mode decomposition (EMD) methodology is proposed for flaw echo enhancement. The backscattered signal was first decomposed into several intrinsic mode functions (IMFs) using EMD or ensemble EMD (EEMD). The sample entropies (SampEn) of all IMFs were used to select the relevant modes. Otsu`s method was used for interval thresholding of the first relevant mode, and a window was used to separate the flaw echoes in the relevant modes. The flaw echo was reconstructed by adding the residue and the separated flaw echoes. The established methodology was successfully employed for simulated signal and experimental signal processing. For the simulated signals, an improvement of 9.42 dB in the signal-to-noise ratio (SNR) and an improvement of 0.0099 in the modified correlation coefficient (MCC) were achieved. For experimental signals obtained from two cracks at different depths, the flaw echoes were also significantly enhanced.