The invention discloses a multi-nutrition seedling fermentation fertilizer. The fertilizer is prepared from the following raw materials in parts by weight: 400-450 parts of livestock excretion, 100-120 parts of dried pond sludge powder, 40-50 parts of straw powder, 50-60 parts of rape seed cake, 50-60 parts of soybean cake, 20-25 parts of corn flour, 1-2 parts of sodium selenite, 1-2 parts of boric acid, 3-4 parts of magnesium sulfate, 4-5 parts of zinc sulfate, 1-2 parts of borate, 3-4 parts of sulfur, 6-9 parts of EM (effective microorganism) bactericide, 10-15 parts of soil conditioner, and a proper amount of water. According to the multi-nutrition seedling fermentation fertilizer, livestock excretion, dried pond sludge powder and other natural organic raw materials are adopted as main raw materials and can be conveniently and easily obtained, and domestic waste can be sufficiently applied, so that energy can be recycled, the raw material structure of the fertilizer can be improved, the using proportion of biological organic fertilizer in the fertilizer can be increased, and food safety and eco-environmental safety can be realized. The prepared fertilizer has the advantages of improving soil, increasing utilization of fertilizer, promoting seedling growth and development and the like.