| Navicula ergadensis var. minor (H. Perag. & M. Perag) Hendey, 1964 |
| Navicula erifuga Lange-Bert., 1985 |
| Navicula exiguiformis Hust., 1944 |
| Navicula exiguiformis f. capitata Hust., 1944 |
| Navicula fauta Hust., 1954 |
| Navicula festiva Krasske, 1925 |
| Navicula filicinum Harv., 1860 |
| Navicula flagellifera Hust., 1939 |
| Navicula flanatica Grunow, 1860 |
| Navicula forcipata Grev., 1859 |
| Navicula forcipata var. nummularia (Grev.) Cleve, 1895 |
| Navicula formenterae Cleve, 1895 |
| Navicula formicina Grunow, 1878 |
| Navicula frequens van Heurck, 1909 |
| Navicula galea Peragallo, 1891 |
| Navicula gastrum (Ehrenb.) Kütz., 1844 |
| Navicula gelida Grunow, 1884 |
| Navicula gemmata Grev., 1859 |
| Navicula gemmatula Grunow, 1875 |
| Navicula gibba (Ehrenb.) Kütz., 1844 |