The invention belongs to the technical field of a defoaming agent and preparation of the defoaming agent, and relates to a composite organic silicon defoaming agent and a preparation method of the composite organic silicon defoaming agent. The organic silicon defoaming agent is prepared from the following ingredients in percentage by weight: 48 percent to 54 percent of distilled water, 1.1 percent to 2.48 percent of silicon dioxide, 38 percent to 48.5 percent of simethicone, 1 percent to 3 percent of emulsifying agents, 1 percent to 6 percent of assistants for emulsifying agents and 0.5 percent to 1 percent of stabilizing agents, and the total weight percentage is 100 percent. During the preparation, a main defoaming agent is prepared from the silicon dioxide and the simethicone; then, the distilled water, the assistants for emulsifying agents, the stabilizing agents and the stabilizing agents are sequentially and proportionally added into a reaction device; after the materials are completely dissolved, the main defoaming agent is added for emulsification, and the organic silicon defoaming agent is obtained. The defoaming agent has the advantages that the preparation process is simple; the raw materials can be easily obtained; the cost is low; the prepared organic silicon defoaming agent can maintain good defoaming and foam inhibiting performance; meanwhile, the characteristics of high efficiency, stability, alkali resistance, heat resistance and the like are realized.