The invention discloses a stirring type preparation process of active probiotic flavored fermented milk. The active probiotic flavored fermented milk is prepared from raw milk, white granulated sugar, whey protein powder, isomalto-oligosaccharide, a compound stabilizer, anhydrous cream, sucralose and strains; the strains comprise streptococcus thermophilus, lactobacillus bulgaricus, lactobacillus plantarum and lactobacillus rhamnosus; the preparation process comprises the following steps: checking the raw milk, purifying the milk, standardizing and temporarily storing; adding all the materials and blending; pre-heating and carrying out high-temperature homogenization; raising the temperature and sterilizing; cooling and inoculating; after fermenting, putting the milk into a jar, cooling and temporarily storing; stirring, filling and packaging in sequence; finally, putting into a freezer and freezing to carry out after-ripening. According to the flavored fermented milk disclosed by the invention, types and quantities of the strains are enriched through four types of lactic acid bacteria, and intestinal harmful bacteria are effectively inhibited; one part of sucrose is replaced with the isomalto-oligosaccharide, so that the calories of the fermented milk are reduced and the content of active probiotics in the final finished-product fermented milk is extremely great; intestinal probiotics can easily become a dominant population.