The invention discloses powder coating with super-weathering resistance, a preparation method and an application thereof. The powder coating comprises the following raw materials in parts by weight: 40-90 parts of weather-resistant polyester resin, 3-30 parts of thermosetting fluorocarbon resin, 4-50 parts of curing agent, 0.1-1.5 parts of flatting agent, 0.2-0.8 part of degasifying agent, 0-4.5 parts of defoaming agent and 4-45 parts of pigment and filler. The powder coating with super-weathering resistance provided by the invention has scientific and reasonable proportioning in the aspects of raw material composition and raw materials, fine comprehensive properties such as flexibility, hardness, adhesive force and the like, stable chemical property, easy storage, performances of acid rain, ozone, ultraviolet ray and chemical medicine resistance and the like in long-term outdoor use, environment protection and wide application range. The preparation method provided by the invention has reasonable processes, strong operability, high qualified rate of finished products and capability of realizing industrialized production.