The invention discloses a composite metal cysteamine chelate and a preparation method and application thereof. The preparation method comprises the steps of enabling cysteamine hydrochloride to dissolve in water, adding metal salt or a metallic compound, performing uniform stirring, adjusting pH value to be 10-11, performing a heating reaction, and performing filtration so as to obtain a cysteamine metal chelate; and enabling the cysteamine metal chelate to be dispersed in ethanol, adding ethyl orthosilicate, performing stirring until a system is turbid, adding N,N-dimethyldodecylamine and (3-chloropropyl)trimethoxysilane, performing a heating reaction, performing filtration, performing washing, and performing drying so as to obtain the composite metal cysteamine chelate. A trace metal element is chelated with cysteamine, an SiO2 coating layer is subjected to in situ deposition at the outer layer of the chelate, and through cooperation with modification of quaternary ammonium salt at the surface, stability and bacterial inhibition are increased, the storage life of a feed is prolonged, mildew and rot of the feed are prevented, and the composite metal cysteamine chelate has equivalent application value.