A flow battery system and method of operating the system minimizes performance losses. The flow battery system includes at least one cell, a first tank including a liquid electrolyte, a pump operably connected to the first tank and to the at least one cell, and a second electrolyte tank operably connected to the at least one cell. The flow battery system further includes a memory including program instructions stored therein, at least one sensor configured to a generate at least one signal associated with a sensed condition of the battery system, and a controller operably connected to the at least one sensor, the pump, and the memory and configured to execute the program instructions to determine a dead zone condition exists based upon the at least one signal, and control the pump to pulse flow of the liquid electrolyte to the at least one cell based upon the determination.