The invention relates to a compound synergism method of enterococcus faecalis and application thereof. The compound synergism method of enterococcus faecalis mainly comprises microbe strain compounding, viable bacteria breeding promoter compounding and the like, wherein the microbe strain is mainly composed of one or more of enterococcus faecalis, enterococcus faecium, acidophilic streptococcus and saccharomycetes in a mixing manner; the viable bacteria breeding promoter is mainly composed of one or more of xylitol, lactose, fructo-oligose, xylooligosaccharide, chitosan, yeast powder, folic acid and citric acid in the mixing manner. By adopting the compound synergism method of the bacterial strain disclosed by the invention, the synergistic effects of different microbe strains are achieved, the purification process of a water pollutant is accelerated, and balance of a material flow and an energy flow of an aquacultural ecosystem is facilitated. The product is used in the aquaculture process, so that a bacteria phase and an algae phase of the water can be effectively balanced, the pollutants such as residual feeds, faeces, animal carcass and the like are quickly decomposed, the aquaculture water quality is improved, the stability of the aquaculture water is increased, and ageing of the aquaculture water is prevented.