A method of controlling an energy harvesting system that converts excess thermal energy into mechanical energy and includes a Shape Memory Alloy (SMA) member, includes obtaining current operational parameters of the energy harvesting system, such as a maximum temperature, a minimum temperature and a cycle frequency of the SMA member. The current operational parameters are compared to a target operating condition of the energy harvesting system to determine if the current operational parameters are within a pre-defined range of the target operating condition. If the current operational parameters are not within the pre-defined range of the target operating condition, then a heat transfer rate to, a heat transfer rate from or a cycle frequency of the SMA member is adjusted to maintain operation of the energy harvesting system within the pre-defined range of the target operating condition to maximize efficiency of the energy harvesting system.