The invention discloses a special aquaculture cleaning agent which is prepared from, by weight parts, 15-20 parts of cordate houttuynia, 0.3-0.5 parts of vanillin, 0.3-0.5 parts of thymol, 10-20 parts of diatomaceous earth, 20-30 parts of fan shell powder, 10-20 parts of modified flax powder, 35-40 parts of kaolin, 5-10 parts of activated carbon fiber, 17-20 parts of zeolite and 13-19 parts of freeze-dried duckweed powder. The special aquaculture cleaning agent can effectively remove dissolved pollutants in the aquatic water body, balance water body nutrition, improve water quality and water body transparency, control algae burst, improve water body dissolved oxygen, improve fish activity, further improve fish flesh quality, improve content of beneficial microorganisms in the water body, promote microecological balance, achieve stabilization of the aquatic water body and disease control, reduce aquaculture pollution, and improve quality and safety of special aquaculture aquatic products.