The environmental behavior of heavy metals in acidic mine drainage (AMD) was restricted by schwertmannite. When environmental conditions change, phase transformation of schwertmannite will occur, causing redistribution or even releasing of bound heavy metals in the mining area. This study investigated the dissolution and phase transformation of synthetic schwertmannite prepared in the presence of different contents of chromium and molybdenum induced by S(-II) with flow column method. Results showed that the concentrations of heavy metals and sulfur ions in the leachates decreased with the prolongation of reaction time and the increase of Cr and Mo loading contents, also followed Sch>0.1Mo0.06Cr-Sch>0.2Mo0.09Cr-Sch. Zero-order kinetic was proved to be the best kinetic model for the release processes of Cr and Mo. In addition, according to the XRD and XPS characterization, goethite was the main products of the pure schwertmannite treatments, and the loading heavy metals can improve the stability of minerals to a certain extent and retard the phase transformation of schwertmannite. Results obtained in this study will provide a theoretical basis for the remediation of heavy metals in AMD system of metal sulfide mining areas.