The invention belongs to making and application of nutritional additives, and particularly discloses a whole-grain composite additive, preparation thereof and an application thereof to whole-grain flour preparing. An effective quantity of raw materials such as bran, corn, sticky rice, glutinous millet, black rice, black soya beans, fragrant rice, soybeans, oat, barley, red beans, peas, millet, buckwheat, green beans, peanuts, broomcorn and pearl barley are made into the whole-grain composite additive through sorting, screening, puffing, frying and smashing, and the whole-grain composite additive is used for preparing the whole-grain flour. By means of the whole-grain composite additive, the technical problems that in the prior art, a product nutritional structure is incomprehensive, mouthfeel is rough, and digestion is difficult are solved. The whole-grain composite additive has the advantages of being comprehensive in nutrition, fine and smooth in mouthfeel, easy to digest, high in gluten index, suitable for being made into multiple kinds of cooked wheaten food and the like.