• A new coupled magnetic wireless charging heat transfer system is developed. • The thermo-hydraulic performance is analyzed by experiment and simulation. • A new idea of liquid flow model on superhydrophobic surface is proposed. • The entrance effect and heat transfer mechanism of boundary layer are analyzed. Recently emerged composite Fe 3 O 4 -CNTs/water nanofluids, serves as a new working medium with high controllability and special flow properties under magnetic field, which can be utilized for the energy saving and cooling of wireless charging equipment. Herein, we studied a cooling system with superhydrophobic (SHP) surface coupled with magnetic nanofluids. Experiments on convective heat transfer are carried out, and the performance of SHP surface is evaluated comprehensively. In addition, the influence of micro-groove, gas–liquid ratio and magnetic field intensity on the heat transfer performance of system is also studied through numerical simulations. Compared with the traditional forced convection cooling method, magnetic fluid on SHP surface destroys the thermal boundary layer under magnetic field, reduces the overall thermal resistance, and improves the heat exchange effect. Compared with water, magnetic fluid can increase the system temperature difference to 21.53%, meanwhile, the heat transfer efficiency of the whole cooling system can improve by 31.39%, under magnetic field. Furthermore, a new idea of flow model on SHP surface is also proposed in this work. Reported results illustrate an advanced cooling method realized via utilization of SHP surface with magnetic nanofluids and magnetic regulation.