A sea cucumber preparation and manufacturing method thereof, comprising steps as follows: put the cut and well-cleaned fresh sea cucumber or soaked sea cucumber into an airtight container; at 70˜130° C., gelatinate for 1 min˜20 h, freeze-dry till the water content is less than 10 wt %, then sequentially carry out coarse, ultra-micro and nanometer crushing till the fineness reaches 10˜1000 nm. Add water into the sea cucumber nanometer powder to carry out proteinase enzymolysis, after the enzymolysis is finished, inactivate the proteinase, separate and take the supernatant and dry to get nanometer sea cucumber extract. Evenly mix the extract with panax pseudo-ginseng saponins extract at the proportion of 99˜70%:1˜30%. The content of the sea cucumber polysaccharide in the mixture is 2.5˜8.0 wt %, the content of panax pseudo-ginseng saponins is 0.3˜21.0 wt %. The compound preparation has complementary and synergistic effects on pharmacological effect. The side effects of single preparation can be eliminated through the compound preparation, the pharmacological functions of the sea cucumber or panax pseudo-ginseng single preparation are greatly enhanced, and can be used for anti-coagulation, diabetes and other various medicinal purposes.