In this work, a new technique process for processing Cu-Zn mixed ores containing chalcopyrite and marmatite was proposed to avoid the complex Cu-Zn flotation and extraction separation processes, as well as for the comprehensive utilization of abandoned silver-containing zinc leaching residue (ZLR). In the first step, stepwise bioleaching of Cu-Zn mixed ores in the presence of mixed moderately thermophilic microorganisms and Fe3+ was conducted for recovering Zn from marmatite. Copper was then efficiently extracted from the copper-containing bioleaching residues through catalytic bioleaching by using ZLR as catalyst. The final bioleaching residues were subsequently leached by thiourea for recovering Ag efficiently. The provided technique process accomplished the stepwise dissolution of Cu-Zn mixed ores and the comprehensive utilization of silver-bearing ZLR. The intermediate species, the electrochemical dissolution process and the electrochemical interactions between chalcopyrite and marmatite were also discussed to interpret the detailed mechanisms of stepwise bioleaching.