The invention discloses a preparation method of a low molecular dropping pill with sea cucumber and oyster active materials; the invention is characterized by taking the sea cucumber or the oyster meat as the raw material, adopting the biological enzymolysis method, obtaining the sea cucumber enzymolysis liquid or the oyster enzymolysis liquid, correcting the flavor by the compound flavor protease, getting the low-molecular-weight active component liquid after ultrafiltrating the liquid after enzyme inactivation, adding an edible dropping pill matrix and getting the low molecular sea cucumberand the oyster active material dropping pill. The invention is made from the low-molecular active material and the utilization ratio of the active material is high. The low molecular sea cucumber andthe oyster active material dropping pill is easy to be absorbed by the human body, rich in nutrient, reasonable in formulation and easy in administration.