In the complex industrial processes, the control system cannot work in an ideal state and is always affected by the outside environment. For example, when measuring the feedback signal, the control system will inevitably be affected by the measurement noise. In order to reduce the influence of measurement noise, various filtering techniques are usually used to improve the performance of the control system. In the microgrid frequency control system, considering the feedback loop has Gaussian distributed and non-Gaussian distributed measurement noise, dynamic data reconciliation based filtering technology is proposed and used in the microgrid frequency control system. The power grid frequency deviation is used for comparison with and without the use of dynamic data reconciliation based filter technology. The results demonstrate that the dynamic data reconciliation based filtering technology can effectively suppress the influence of measurement noise in the feedback control loop of microgrid so as to improve the frequency control performance of microgrid.