In this study, the hydrochloric acid from rare earth oxalic acid precipitation mother liquor was separated by electrodialysis (ED) with different anion exchange membranes, including selective anion exchange membrane (SAEM), polymer alloy anion exchange membrane (PAAEM), and homogenous anion exchange membrane (HAEM). In addition to actual wastewater, nine types of simulated solutions with different concentrations of hydrochloric acid and oxalic acid were used in the experiments. The results indicated that the hydrochloric acid could be separated effectively by electrodialysis with SAEM from simulated and real rare earth oxalic acid precipitation mother liquor under the operating voltage 15 V and ampere 2.2 A, in which the hydrochloric acid obtained in the concentrate chamber of ED is of higher purity (>91.5%) generally. It was found that the separation effect of the two acids was related to the concentrations and molar ratios of hydrochloric acid and oxalic acid contained in their mixtures. The SEM images and ESD–mapping analyses indicated that membrane fouling appeared on the surface of ACS and CSE at the diluted side of the ED membrane stack when electrodialysis was used to treat the real rare earth oxalic acid precipitation mother liquor. Fe, Yb, Al, and Dy were found in the CSE membrane section, and organic compounds containing carbon and sulfur were attached to the surface of the ACS. The results also indicated that the real rare earth precipitation mother liquor needed to be pretreated before the separation of hydrochloric acid and oxalic acid by electrodialysis.