A new electrodialysis with charge-mosaic membranes was proposed to achieve efficient desalination of a mixed solution of an amino acid and an inorganic salt. For such a mixed solution, the conventional electrodialytic desalination with both cation- and anion-exchange membranes had resulted in a considerable loss of the amino acid through the membranes. In this method, however, the amino acid in the desalination channel of the electrodialyzer migrates away from the membranes so that the permeation loss of the amino acid through the membrane can be prevented. Batchwise desalination experiments by this method were carried out with a glutamic acid or arginine solution including NaCl under the condition of constant electric current density. Similar experiments by the conventional method were also carried out. As a result of comparing both methods, the amino acid loss in this method became much smaller than that in the conventional one. It was confirmed that this method was very useful for the desalination of an amino acid solution. The effects of operating conditions on the desalination process are also discussed.