Inorganic silica and various mineral deposits are particularly important in the process waters of power plants. The presence of these inorganic species, especially silica, poses many challenges for process water applications in power plants. If silica in process waters is not controlled, it forms hard, difficult, and dangerous deposits for process water. Silica formation and accumulation cannot be prevented by many conventional methods and scale inhibitors. In this study, Bacillus subtilis bacteria was used to minimize silica formation in the process water of power plants. For this purpose, many different parameters were optimized in the system steps. The results obtained are promising for the use of silica removal in process water applications. In addition, the use of Bacillus subtilis bacteria for the treatment of process water will provide significant economic benefits. Therefore, this study will make an important contribution to the literature and will be very advantageous in terms of cost for various industrial organizations that face silica problems in process waters.