The invention discloses a method and system for coordination control of isolated microgrid frequency based on a temperature control load, while ensuring the comfort level of users, uses a synergistic effect of an improved variable participation degree frequency modulation method for the temperature control load and an energy storage device frequency modulation method to realize secondary adjustment of microgrid system frequency, can give full play to a frequency modulation capability of the temperature control load, and can effectively lower a requirement for the capacity of the energy storage device, thereby well improving a microgrid frequency control effect. The method includes the steps of: S1. performing frequency modulation on a microgrid based on an improved user participation degree coefficient K, K=on%P/(T<+>-T<->)*k, wherein k is an original user participation degree coefficient, on% is the proportion of the temperature control load in an on state under a stable running state, P is rated power of the temperature control load, and T<+> and T<-> are set temperature limits for switching-on and switching-off of the temperature control load; and S2. performing frequency modulation on the microgrid again based on the energy storage device.