The invention provides plant polypeptide compound gel for treating gynecological diseases and a preparation method thereof. The plant polypeptide compound gel is mainly prepared by, 12-20 parts of scutellaria baicalensis, 12-20 parts of gastrodia elata, 5-8 parts of radix sophorae flavescentis, 5-8 parts of Chinese gall, 5-8 parts of common cnidium fruits, 3-6 parts of stemona tubers, 3-6 parts of Chinese violet and 1-3 parts of mint. Preferably, extracts containing plant polypeptide are prepared into the gel for treating the gynecological diseases, the plant polypeptide compound gel has the advantages of being small in irritation, good in stability, easy to store, convenient to transport and use, short in effective time and long in medical effect duration time.