The invention relates to a group of alive microbial preparations for preparing compound microbial fertilizer and the preparation method thereof. The alive microbial preparations include a microbial inoculant and an organic material degradation agent. The microbial inoculant includes Bacillus megaterium, Bacillus licheniformis, Bacillus mucilaginosus, Bacillus laterosporus, Azotobocter chroococcum, etc. The organic material degradation agent includes Bacillus megaterium, Bacillus licheniformis, Bacillus subtilis, Bacillus circulans, Saccharomyces cerevisiae, Candida lipolytica, Bacillus pumilus, Bacillus cereus, Streptomyces griseus, Pseudomonas alcaligenes, Pseudomonas cepacia, Streptococcus salivarius subsp. Thermophilus, Geobacillus stearothermophilus, Streptomyces Thermophilus, Geotrichum candidum and Aspergillus oryzae. The preparation method comprises the following steps: carrying out submerged fermentation, directly mixing the bacterial liquids and stirring to obtain a liquid preparation; or mixing with an absorbent to obtain a solid preparation. The alive microbial preparations have the advantages of improving soil fertility, promoting plant growth, enhancing anti-disease, anti-insect and anti-drought capacities of plants, improving quality of agricultural products and so on.