Three new molybdenum (VI) complexes of 4,6-O-ethylidene-beta-d-glucopyranosylamine derived ligands has been synthesized and the same has been used in the oxidation of thioanisole along with an earlier reported analogous complex. A selective oxidation of thioanisole to methyl phenyl sulphoxide in high yield is achieved using 1:1 mixture of thioanisole and urea hydrogen peroxide (UHP) in ethanol. A longer reaction time or excess of UHP, leads to the formation of corresponding sulphone, which was confirmed using HPLC and NMR measurements.