The following are all lysosomal diseases, listed by stored material

(With acknowledgements to the website of Lysosomal Diseases Australia)

Sphingoliphids (number of deficiencies: 12)
Fabry, Farber, Gaucher, GM1-gangliosidosis, Krabbe, metachromatic leucodystrophy, Niemann–Pick types A and B, Sandhoff, Tay Sachs

Muccopolysaccharides (number of deficiencies: 10)
Hurler (MPS I), Hurler–Scheie (MPS I), Hunter (MPS II), Sanfilippo (MPS III A, B, C, D), Morquio (MPS IV A, B), Maroteaux–Lamy (MPS VI), Sly (MPS VII)

Glycogen (number of deficiencies: 2)
Pompe

Oliogosaccharides (number of deficiencies: 6)
Aspartylglucosaminuria, fucosidosis, alpha and beta-mannosidosis, Schindler, sialidosis.
This group also includes mutiple compunds with 3 deficiencies: galactosialidosis, mucolipidosis types II and III also known as I-cell disease and pseudo-Hurler polydystrophy

Cholesterol (number of deficiencies: 3)
Niemann–Pick types C1 and C2, Wolman

Amino acids/sugars (number of deficiencies: 3)
Cystinosis, infantile sialic acid storage, Salla

Peptides (number of deficiencies: 1)
Pycnodysostosis

Proteins (number of deficienies: 5)
Batten, ceroid lipofuscinosis