The invention discloses a preparation method and composition of probiotic formulated camel milk powder capable of coordinating the intestines and the stomach. The probiotic formulated camel milk powder comprises the following raw materials in parts by weight: 300 to 5600 parts of camel milk, 100 to 300 parts of desalted whey powder, 100 to 180 parts of isomaltooligosacharide, 30 to 175 parts of concentrated whey protein powder, 25 to 35 parts of inulin, 10 to 15 parts of compound nutrients, 0.5 to 1 part of a direct-vat starter of lactic acid bacteria, and 0.4 to 1 part of mixed bacteria of lactobacillus acidophilus La-5 and bifidobacterium animalis Bb-12. The invention discloses the preparation method of the fermented camel milk powder. The preparation method comprises the following steps: adding the direct-vat starter of lactic acid bacteria into sterilized camel milk, and carrying out fermenting until an acidity value is 38-42 DEG T so as to obtain fermented milk; uniformly mixing the camel milk, the desalted whey powder, the isomaltooligosacharide, the concentrated whey protein powder, the inulin and the compound nutrients, adding water, performing homogenizing treatment, performing high-temperature sterilization, performing concentration, adding the fermented milk, performing uniform mixing under stirring, and performing spray drying to obtain the camel milk powder.