A complex microorganism rhzomorph modifier for saline-alkali soil is characterized by comprising, by weight, 25%-35% of farmland soil, 5%-10% of active functional bacteria, 5%-15% of mineral powder, 25%-30% of organic fertilizer, 15%-20% of inorganic fertilizer and the balance of water. All the components constitute 100% in percentage. The active functional bacteria comprises bacillus megatherium, Paenibacillus kribbensis, Bacillus laterosporus, rhizobium astragali and paecilomyces lilacinus. The mineral powder is the mixture comprising one or more of peat, vermiculite, montmorillonite, zeolite, calcium carbonate, expanded perlite. The fineness of the mineral powder is equal or lower than 200 meshes. The organic fertilizer comprises thoroughly decomposed manure fertilizer, rapeseed cake fertilizer and straw fertilizer. The weight ratio among manure fertilizer, rapeseed cake fertilizer and straw fertilizer is 5.5-7.5:2.5-3.5:0.5-1.5.