| Protoperidinium laciniosum Balech, 1994 |
| Protoperidinium latidorsale (P.A. Dang.) Balech, 1974 |
| Protoperidinium latispinum (L. Mangin) Balech, 1974 |
| Protoperidinium latissimum (Kof.) Balech, 1974 |
| Protoperidinium latum Paulsen, 1908 |
| Protoperidinium leonis (Pavill.) Balech, 1974 |
| Protoperidinium lipopodium (Balech) Balech, 1974 |
| Protoperidinium longipes (G. Karsten) Balech, 1974 |
| Protoperidinium marielebourae (Paulsen) Balech, 1974 |
| Protoperidinium marukawai (T.H. Abé) Balech, 1974 |
| Protoperidinium mediterraneum (Kof.) Balech, 1974 |
| Protoperidinium minutum (Kof.) A.R. Loebl. III, 1970 |
| Protoperidinium mite (Pavill.) Balech, 1974 |
| Protoperidinium murrayi (Kof.) Hern.-Becerr., 1991 |
| Protoperidinium nanum (Balech) Balech, 1974 |
| Protoperidinium nipponicum (T.H. Abé) Balech, 1974 |
| Protoperidinium norpacense (Balech) Balech, 1974 |
| Protoperidinium nudum (Meunier) Balech, 1974 |
| Protoperidinium nux (J. Schill.) Balech, 1974 |
| Protoperidinium oblongum (Auriv.) Parke & J.D. Dodge, 1976 |