The invention relates to an organic synthesis method, in particular to a method for synthesizing an Arbekacin and an intermediate dibekacin thereof. The method comprises the following steps of: takinga kanamycin B as initial raw material, carrying out the following processes of aldol condensation, sulfonylation, sodium iodide replacement and elimination to form double bond, de-protection under acidic condition, amino-electron reduction and final hydrogenation, thus obtaining the dibekacin; taking 3',4'-dideoxy -3',4'-didehydro-kanamycin B as raw material, using a di-tert-butyl dicarbonate toselectively protect the amidogen of 3, 2', 6', 3'' sites; subsequently using the synthesized active ester to protect the 1-site amidogen; subsequently using tri-fluoroacetic acid to remove BOC; and carrying out hydrazinolysis and catalysis and hydrogenation of platinum oxide, thus obtaining the Arbekacin. The synthesis method has the advantages of simple operation, high outcome yield, reducing thecost of raw material, optimizing the reaction route, lowering the requirements to the reaction conditions and being beneficial to industrial production.