The invention discloses a pipe fish kidney warming and yang invigorating sour soup base and a preparation method thereof. The soup base is prepared from the following raw materials in parts by weight: 45 to 55 parts of pipe fish, 20 to 30 parts of black-bone chicken, 20 to 30 parts of thelenota ananas, 15 to 20 parts of illicium verum, 15 to 20 parts of Chinese tuliptree bark, 15 to 20 parts of kidney of fur seal, 15 to 20 parts of cordyceps sinensis, 10 to 15 parts of deer's sinew, 10 to 15 parts of American ginseng, 10 to 15 parts of lucid ganoderma, 10 to 15 parts of dragon bone, 10 to 15 parts of cassia bark, 25 to 35 parts of wild tomato, 15 to 20 parts of spine date seed, 15 to 20 parts of raspberry, 15 to 20 parts of shine skin papaya, 15 to 20 parts of cornus officinalis, 10 to 15 parts of toosendan fruit, and 10 to 15 parts of rice wine. The preparation method comprises the following steps: preparing raw materials, extracting raw materials, carrying out centrifugation, mixing, preparing tomato paste, mixing, grinding, mixing all raw materials, concentrating, and drying. The provided soup base has a sour and fresh taste, is palatable, is rich in nutrients, and has the functions of warming the kidney, invigorating yang, dissipating binds, eliminating swelling, astringing, and inducing astringency, if people eat the soup base for a long term.