This article presents the results of the design of acoustic−magnetic device thermal protection technology based on simulation. The acoustic−magnetic device (AMD) was installed in the heat supply system of a greenhouse complex with a geothermal heat source, developed and patented by the authors of this paper. Simulation was performed to investigate the possibility of maintaining the acoustic transmitter temperature of the acoustic−magnetic device in its operating range. The QuickField Student Edition v 6.4 simulation environment was used for this purpose. Based on the results of the simulation, the optimum thermal mode of the acoustic−magnetic device was developed and implemented. The optimum temporal operating mode of the acoustic−magnetic device is necessary for the optimization of the non-reagent treatment of geothermal water in a heat supply system of a greenhouse complex. It allows for a considerable reduction in the intensity of scale formation in the heat exchanger and equipment of a geothermal heating system. As demonstrated by the simulation thermal modes, the acoustic−magnetic device provides conditions for the work maintenance of the AMD acoustic transmitter at the resonance frequency, reduces the power expenses, and increases the efficiency of the acoustic influence on the scale formed in the heat supply system of a greenhouse complex. The results of the simulation were implemented in the greenhouse complex of JSC “Raduga”. The thermal protection technology was realized by installing two acoustic−magnetic devices and automation systems in the geothermal heating system a greenhouse complex.