The invention relates to a sport nutritional probiotic composition and a preparation method thereof. The sport nutritional probiotic composition comprises the following raw materials in parts by weight: 10 to 30 parts of creatine, 1 to 3 parts of 1,6-fructose diphosphate, 0.5 to 1 part of lactobacillus plantarum TWK10, 10 to 20 parts of isomalto-oligosaccharide, 5 to 15 parts of fructo-oligosaccharide, 10 to 20 parts of xylooligosaccharide, 0.15 to 0.25 part of lactobacillus rhamnosus Lr-G14, 0.17 to 0.26 part of lactobacillus acidophilus LA-G80, 0.2 to 0.3 part of bifidobacterium bifidum BB-G90 and 0.3 to 0.4 part of bifidobacterium lactis BL-G101. According to the composition, the creatine, the fructose 1,6-diphosphate, the lactobacillus plantarum TWK10, prebiotics and probiotics are taken as raw materials to form the sport nutritional probiotic composition, so that the sport performance can be effectively improved, the fatigue can be relieved, the muscle strength can be increased, the intestinal florae can be adjusted, and the gastrointestinal sport stress symptom can be relieved.