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We have presented an enantiomer separation process based on the ultrafiltration of enantioselective micelles containing chiral selector molecules. The selector, an amino acid derivative-Cu(II) complex, is dissolved in nonionic micelles and applied to the separation of racemic amino acid mixtures. In the ultrafiltration experiments, we have shown that the operational enantioselectivity is influenced by the chain length of the nonionic surfactant and the pH of the medium. We developed a multistage separation process because the experimentally measured selectivity of 1.9 at pH 7 for a single-stage separation process is not sufficient to obtain both enantiomers at >99% purity. Experimental data and model calculations indicate that the productivity of the multistage process can be improved by reducing the affinity of the microheterogeneous media for the enantiomers. Ultrafiltration of microheterogeneous media in cascaded systems uses the benefits of chromatographic and distillation process: preferential binding under mild conditions and countercurrent flow of the micellar phase and the bulk phase through the apparatus. This concept provides a new basis for the development of large-scale separation techniques.