The invention relates to an amino acid organic and inorganic special compound fertilizer for potatoes and a manufacturing method thereof. The compound fertilizer comprises the following components in percentage by mass: 10 to 13 percent of urea, 20 to 23 percent of potassium sulfate, 22 to 25 percent of calcium superphosphate, 22 to 28 percent of harmlessly treated organic substance, 16 to 18 percent of acid decomposed amino acid solution and 3 to 4 percent of bentonite. The compound fertilizer can meet the physiological demands of potato growth, provides nitrogen, phosphorus and potassium inappropriate proportion for the potato growth, and promotes the development of potato root systems by using amino acid, so that the potato roots fully absorb nutrition, the potato tubers are promoted to expand and the yield of the potatoes is improved; the used raw materials do not contain the components harmful for the growth and development of plants, the organic nutrients and the inorganic nutrients are combined reasonably, the slow-release period of the nutrients is increased, the utilization rate of the fertilizer is greatly improved, and the soil structure is improved, so the compound fertilizer is particularly suitable for one-time fertilization requirement of the potatoes; and in the manufacturing method, the raw material sources are wide, the manufacturing process is simple, the equipment is easily obtained, and the investment is low.