A metabolic disorder caused by mutations in proteins critical for lysosomal function, including lysosomal enzymes, lysosomal integral membrane proteins, and proteins involved in the post-translational modification and trafficking of lysosomal proteins. The disease is lysosomal storage disease (MONDO_0002561). Also known as: disorder of lysosomal enzyme, disorder of lysosomal enzymes, inborn lysosomal enzyme disorder, lysosomal disease, lysosomal disorder, lysosomal storage disorder, lysosomal storage metabolism disorder, lysosome disease.