The invention discloses kelp microcrystalline cellulose and a preparation method thereof as well as application of the prepared microcrystalline cellulose. The preparation method of the kelp microcrystalline cellulose comprises the following steps of by adopting waste kelp residues after kelp glue-extracting as the materials, carrying out flocculation collecting, acidification decalcification, alkaline treatment, bleaching treatment, washing, drying and hydrolytic treatment, wherein in the hydrolytic treatment, two different low-temperature cellulases are respectively added according to the addition of 20U/g-30U/g; carrying out enzymolysis for 0.5-12 hours in a water bath of 10 DEG C-40 DEG C; and drying and crushing to obtain the kelp microcrystalline cellulose. According to the preparation method of the kelp microcrystalline cellulose, the production cost is low, the environment pollution is small, the hydrolysis step adopts a double-enzyme jointed enzymolysis technology, the degradation speed is stable, the degraded cellulose is uniform in molecular weight, the cellulose crystalline grains are small and uniform, degradability of the fibers can be effectively controlled, and the microcrystalline cellulose with high purity and high activity is obtained. The kelp microcrystalline cellulose disclosed by the invention is high in cellulose content, high in water holding capacity and expansion force, and can be used for food additive and pharmaceutical adjuvant in the food industry.