Between brackets is the number of accepted species

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- Mollusca (132 754)
- Subphylum Aculifera
- Subphylum Conchifera
- Subphylum Placophora accepted as Polyplacophora
- Superclass Aplacophora
- Class Amphineura accepted as Aculifera
- Class Bivalvia (24 992)
- Subclass Autobranchia (23 278)
- Infraclass Heteroconchia (16 634)
- Subterclass Archiheterodonta (1 205)
- Subterclass Euheterodonta (11 356)
- Subterclass Heterodonta
- Subterclass Palaeoheterodonta (4 072)
- Order Trigoniida (1 482)
- Order Unionida (2 579)
- Superfamily Deccanoidoidea N. H. Shah & Patel, 2024 †
- Superfamily Etherioidea Deshayes, 1832 (148)
- Family Acostaeidae J. P. E. Morrison, 1973 accepted as Mulleriidae Deshayes, 1832
- Family Etheriidae Deshayes, 1832 (3)
- Family Iridinidae Swainson, 1840 (68)
- Subfamily Aspathariinae Modell, 1942 (25)
- Subfamily Dentaspathariinae Modell, 1964 † accepted as Coelaturini Modell, 1942
- Subfamily Iridininae Swainson, 1840 (27)
- Genus Dentaspatharia Modell, 1964 † (1)
- Genus Iridina Lamarck, 1819 accepted as Mutela Scopoli, 1777 (11)
- Genus Itaimbea [sic] † accepted as Itaimbeia Mezzalira, 1974 †
- Genus Itaimbeia Mezzalira, 1974 † (1)
- Genus Leptospatha Rochebrune & Germain, 1904 accepted as Chambardia Bourguignat, 1891
- Genus Pseudodiplodon W. Adam, 1957 † (2)
- Species Pseudodiplodon hohwae Van Damme & Pickford, 2010 †
- Species Pseudodiplodon sengae W. Adam, 1957 †
- Genus Pteromutela Starobogatov, 1970 accepted as Mutela Scopoli, 1777
- Genus Spatha I. Lea, 1838 accepted as Mutela Scopoli, 1777
- Genus Spathella Bourguignat, 1885 accepted as Chambardia Bourguignat, 1891
- Genus Taxodontites Simone & Mezzalira, 1997 † (1)
- Family Mulleriidae Deshayes, 1832 accepted as Mycetopodidae J. E. Gray, 1840
- Family Mutelidae Gray, 1847 accepted as Iridinidae Swainson, 1840
- Family Mycetopodidae J. E. Gray, 1840 (77)
- Family Pleiodontidae Rochebrune, 1904 accepted as Iridinidae Swainson, 1840
- Family Pseudomulleriidae Starobogatov, 1970 accepted as Etheriidae Deshayes, 1832
- Superfamily Hyrioidea Swainson, 1840 accepted as Unionoidea Rafinesque, 1820
- Superfamily Silesunionoidea Skawina & Dzik, 2011 † (11)
- Superfamily Tamesnelloidea Van Damme & Bogan, 2015 † (2)
- Superfamily Unionoidea Rafinesque, 1820 (2 417)
- Family Deccanoidea N. H. Shah & Patel, 2024 † accepted as Deccanoidoidea N. H. Shah & Patel, 2024 †
- Family Pachycardiidae L. R. Cox, 1961 † accepted as Trigonodidae Modell, 1942 †
- Family Silesunionina Skawina & Dzik, 2011 † accepted as Silesunionoidea Skawina & Dzik, 2011 †
- Genus Araripenaia V. R. Silva et al., 2020 † (1)
- Family Lyrodesmatidae P. Fischer, 1886 † (8)
- Family Pseudarcidae Scarlato & Starobogatov, 1979 † (3)
- Family Thoraliidae N. J. Morris, 1980 †
- Superorder Heteroconchia incertae sedis † (1)
- Infraclass Pteriomorphia (6 644)
- Subclass Bivalvia incertae sedis (7)
- Subclass Palaeotaxodonta accepted as Nuculida
- Subclass Paleoheterodonta accepted as Palaeoheterodonta
- Subclass Protobranchia (1 365)
- Infraclass Cryptodonta † (342)
- Class Caudofoveata (143)
- Class Cephalopoda (1 832)
- Class Conchifera accepted as Bivalvia
- Class Cricoconarida † (1)
- Class Gastropoda (102 679)
- Class Lamellibranchiata accepted as Bivalvia
- Class Loricata accepted as Polyplacophora
- Class Mollusca incertae sedis † (372)
- Class Monoplacophora (229)
- Class Pelecypoda accepted as Bivalvia
- Class Polyplacophora (1 377)
- Class Polyplaxiphora accepted as Polyplacophora
- Class Rostroconchia † (64)
- Class Scaphopoda (752)
- Class Solenoconchia accepted as Scaphopoda
- Class Solenogastres (313)
- Subclass Chaetodermomorpha accepted as Caudofoveata