- 
?Apogonichthys adspersus Castelnau, 1878
 - 
Apogonichthys ahimsa
- 
?A. a. santoensis Whitley, 1959
 
 
 - 
?Apogonichthys landoni Herre, 1934
- Apogonichthys landoni;  [CoL]  
 
  
 - 
?Apogonichthys macrophthalmus Bleeker (ex Castelnau), 1859-60
 - 
?Apogonichthys melampodus Blosser, 1909
 - 
Apogonichthys melanopterus
- Amia melas Fowler, 1918; (2 homonym)
 - Apogonichthys melanopterus Fowler & Bean, 1930; (replacement)
 
 
 
 - 
Apogonichthys mentalis Evermann & Seale, 1907
 - 
?Apogonichthys nafae Snyder, 1909
 - 
?Apogonichthys nebulosus Ogilby, 1908
 - 
?Apogonichthys nudus Regan, 1905
 - 
Apogonichthys ocellatus Hayashi, 1984
- Apogon ocellatus Weber, 1913; (valid as)
 - Apogonichthys ahimsa Whitley, 1959; (synonym)
 
 
 
 - 
Apogonichthys perdix Bleeker, 1854
- Apogon infuscus Fourmanoir, 1955; (synonym)
 - Apogonichthys infuscus Fourmanoir, 1955; (synonym)
 
 
 
 - 
?Apogonichthys polystigma Bleeker, 1854
 - 
?Apogonichthys strombi Plate, 1908
 - 
?Apogonichthys taeniopterus Bleeker (ex Castelnau), 1859-60
 - 
Apogonichthys waikiki Jordan & Evermann, 1903