Artificial reefs have been advocated and implemented as management tools for aquaculture, species conservation and habitat replacement. However, the shelter capacity of artificial reefs and its influencing factors are still not well understood. In this study, we identified factors that may limit the shelter capacity of artificial reefs for sea cucumber (Apostichopus japonicas) with a laboratory experiment. We investigated how water flow and food availability affect the shelter capacity and conducted shelter utilization experiments to determine whether sea cucumber sheltering behavior was density dependent. The results revealed that shelter capacity of artificial reefs in high velocity is significantly higher than that of artificial reefs in low velocity or no velocity. The artificial reefs that were provided food had significantly higher shelter capacity than those that did not have food. The densities did not affect the sheltering capacity of artificial reefs in the laboratory experiment. There was a logarithmic relationship between the shelter capacity and shelter availability assessed by the exposed surface area of the artificial reefs. In conclusion, abundant food resources and high water flow may have a positive effect on the shelter capacity of artificial reefs.