The invention relates to compound probiotics and a preparation method thereof. The compound probiotics comprise ten or more probiotics and two or more prebiotics. The invention also provides the preparation method of the compound probiotics. The preparation method comprises the following steps: firstly, mixing the compound probiotics according to the proportion, passing through a sieve with 80 to 120 meshes, then taking siftage and weighing; secondly, mixing the weighed materials; thirdly, tabletting mixed materials. According to the compound probiotics and the preparation method thereof disclosed by the invention, by scientifically mixing the probiotics with the prebiotics, the efficacy of the compound probiotics is effectively improved, living cell concentration is high, and the efficacy realizing time of the probiotics is shortened; compared with other products in the market, the compound probiotics have the advantages that acid and bile salt resisting capabilities are good; if the compound probiotics are administrated for one month, the improvement rate of constipation reaches 100 percent, the improvement rate of chronic colitis reaches 100 percent, the positive-to-negative rate of helicobacter pylori reaches 82 percent, the rehabilitation rate of chemical liver injury reaches 88 percent, the rehabilitation rate of anaphylactic rhinitis is 91 percent, the rehabilitation rate of female vaginitis reaches 93 percent, the improvement rate of phlegm-dampness constitution reaches 100 percent, the improvement rate of damp-heat constitution reaches 100 percent, and the improvement rate of acnes reaches 98 percent.