Amphipleura hungarica (Pantocsek) Cleve, 1894 accepted as Berkeleya hungarica Pantocsek, 1889 (new combination reference)
Amphipleura pellucida var. brasiliensis Cleve, 1894 (original description)
Amphipleura pellucida var. lindheimeri (Grunow) Cleve, 1894 accepted as Amphipleura lindheimeri var. lindheimeri Grunow, 1862 (new combination reference)
Amphipleura pellucida var. maxima (H.L. Smith in Walker & Chase) Cleve, 1894 accepted as Amphipleura maxima H.L. Smith in Walker & Chase, 1886 (new combination reference)
Amphipleura pellucida var. oregonica Grunow accepted as Amphipleura oregonica Grunow, 1877 (new combination reference)
Amphipleura pellucida var. schumannii (Grunow) Cleve, 1894 accepted as Amphipleura schumannii Grunow, 1877 (new combination reference)
Amphipleura pellucida var. truanii (Van Heurck) Cleve, 1894 accepted as Amphipleura lindheimeri var. truanii Van Heurck, 1884 (new combination reference)
Amphiprora alata var. japonica Cleve, 1894 (original description)
Amphiprora dusenii Cleve, 1894 (original description)
Amphiprora gigantea var. aequatorialis (Cleve) Cleve, 1894 accepted as Amphicampa aequatorialis Cleve, 1873 (new combination reference)
Amphiprora gigantea var. decussata (Grunow in Cleve & Grunow) Cleve, 1894 accepted as Amphiprora decussata var. decussata Grunow in Cleve & Grunow, 1880 (new combination reference)
Amphiprora gigantea var. septentrionalis (Grunow) Cleve, 1894 accepted as Amphiprora decussata var. septentrionalis Grunow, 1880 (new combination reference)
Amphiprora gigantea var. sulcata (O'Meara) Cleve, 1894 accepted as Amphiprora sulcata var. sulcata O'Meara, 1871 (new combination reference)
Amphiprora gigantea var. tahitensis (Grunow in Cleve & Grunow) Cleve, 1894 accepted as Amphiprora tahitensis Grunow in Cleve & Grunow, 1880 (new combination reference)
Amphiprora marginepunctata Cleve, 1894 (original description)
Amphiprora paludosa var. borealis Grunow in Cleve & Grunow, 1880 (new combination reference)
Amphiprora paludosa var. subsalina Cleve, 1894 (original description)
Amphoropsis decipiens ‘Grunow in Van Heurck' Cleve, 1894 (taxonomy source)
Amphoropsis paradoxa (Greville) Cleve, 1894 accepted as Amphiprora paradoxa Greville, 1863 (new combination reference)
Amphoropsis recta var. recta (Gregory) ‘Grunow in Van Heurck' Cleve, 1894 accepted as Amphiprora recta Gregory, 1857 (taxonomy source)
Amphoropsis thwaitesiana (Greville) Cleve, 1894 (new combination reference)
Auricula coarctata (Brun in Brun & Tempère) Cleve, 1894 accepted as Amphiprora coarctata Brun in Brun & Tempère, 1889 (new combination reference)
Auricula complexa (Gregory) Cleve, 1894 accepted as Amphiprora complexa Gregory, 1857 (new combination reference)
Auricula decipiens Grunow, 1894 accepted as Amphora decipiens Grunow in Van Heurck, 1883 (new combination reference)
Auricula incerta Cleve, 1894 (original description)
Auricula insecta (Grunow) A.Schmidt, 1894 accepted as Amphora insecta Grunow ex A.Schmidt, 1876 (new combination reference)
Auricula intermedia (Lewis) Cleve, 1894 accepted as Amphora intermedia Lewis, 1865 (new combination reference)
Auricula javanica Cleve, 1894 (original description)
Auricula minuta Cleve, 1894 (original description)
Auricula pulchra (Greville) Cleve, 1894 accepted as Amphora pulchra Greville, 1863 (new combination reference)
Brebissonia boeckii var. minor Cleve, 1894 (original description)
Caloneis P.T. Cleve, 1894 (original description)
Caloneis abnormis (Grunow) Cleve, 1894 accepted as Navicula abnormis Grunow, 1880 (new combination reference)
Caloneis adenensis Cleve, 1894 (original description)
Caloneis aemula var. aemula (Schmidt) Cleve, 1894 accepted as Navicula aemula var. aemula Grunow in Schmidt, 1874 (new combination reference)
Caloneis aemula var. major (Cleve & Grove) Cleve, 1894 accepted as Navicula aemula var. major Cleve & Grove, 1891 (new combination reference)
Caloneis alpestris f. alpestris (Grunow) Cleve, 1894 accepted as Navicula alpestris var. alpestris Grunow, 1860 (new combination reference)
Caloneis amica (Cleve & Grunow) Cleve accepted as Navicula amica Cleve & Grunow in Cleve, 1881 (new combination reference)
Caloneis amphisbaena f. amphisbaena (Bory) Cleve, 1894 accepted as Navicula amphisbaena f. amphisbaena Bory, 1824 (new combination reference)
Caloneis amphisbaena f. major (Van Heurck) Cleve, 1894 accepted as Navicula amphisbaena f. major Van Heurck, 1880 (new combination reference)
Caloneis amphisbaena f. subsalina (Donkin) van der Werff & Huls, 1957 accepted as Navicula subsalina f. subsalina Donkin, 1870 (new combination reference)
Caloneis amphisbaena var. fenzlii (Grunow) Cleve, 1894 accepted as Navicula fenzlii Grunow, 1863 (new combination reference)
Caloneis amphisbaena var. fuscata (Schumann) Cleve, 1894 accepted as Navicula fuscata Schumann, 1867 (new combination reference)
Caloneis amphisbaena var. liburnica (Grunow) Cleve, 1894 accepted as Navicula liburnica Grunow, 1860 (new combination reference)
Caloneis amphisbaena var. vukotinovicii (Pantocsek) Cleve, 1894 accepted as Navicula vukotinovicii Pantocsek, 1886 (new combination reference)
Caloneis anderssonii (Cleve) Cleve, 1894 accepted as Navicula anderssonii Cleve, 1881 (new combination reference)
Caloneis bacillaris var. bacillaris (Gregory) Cleve, 1894 accepted as Navicula bacillaris var. bacillaris Gregory, 1856 (new combination reference)
Caloneis beccariana var. beccariana (Grunow) Cleve, 1894 accepted as Navicula beccariana Grunow, 1886 (new combination reference)
Caloneis biclavata Cleve & Grove accepted as Navicula biclavata Cleve & Grove, 1891 (new combination reference)
Caloneis biconstricta (Grove & Sturt) Cleve, 1894 accepted as Navicula biconstricta Grove & Sturt, 1887 (new combination reference)
Caloneis biseriata (Petit) Cleve, 1894 accepted as Navicula biseriata Petit, 1877 (new combination reference)
Caloneis blanda (A.Schmidt) Cleve, 1894 accepted as Navicula blanda var. blanda Schmidt, 1874 (new combination reference)
Caloneis bodosensis var. bodosensis (Pantocsek) Cleve, 1894 accepted as Navicula bodosensis var. bodosensis Pantocsek, 1892 (new combination reference)
Caloneis bodosensis var. heribaudi (M. Peragallo in Heribaud) Cleve, 1894 accepted as Navicula heribaudi var. heribaudi M. Peragallo in Héribaud, 1893 (new combination reference)
Caloneis bottnica var. bottnica Cleve, 1894 (original description)
Caloneis brevis f. angustior (Cleve & Grunow) Cleve, 1894 accepted as Navicula distoma f. angustior Grunow (new combination reference)
Caloneis brevis f. bicuneata Cleve, 1894 (original description)
Caloneis brevis f. brevis (Gregory) Cleve, 1894 accepted as Navicula brevis var. brevis Gregory, 1857 (new combination reference)
Caloneis brevis f. distoma (Grunow in Cleve & Grunow) Cleve, 1894 accepted as Navicula distoma f. distoma Grunow in Cleve & Grunow, 1880 (new combination reference)
Caloneis brevis f. latior (Cleve & Grunow) Cleve, 1894 accepted as Navicula distoma f. latior Grunow (new combination reference)
Caloneis brevis f. vexans (Grunow in Cleve & Grunow) Cleve, 1894 accepted as Navicula brevis var. vexans Grunow in Cleve & Grunow, 1880 (new combination reference)
Caloneis campbellii (Petit) Cleve, 1894 accepted as Navicula campbellii Petit, 1877 (new combination reference)
Caloneis castracanei var. caledonica Cleve, 1894 (original description)
Caloneis castracanei var. castracanei (Grunow in Cleve) Cleve, 1894 accepted as Navicula castracanei Grunow in Cleve, 1881 (new combination reference)
Caloneis castracanei var. genuina Cleve, 1894 (original description)
Caloneis castracanei var. petitiana (Grunow) Cleve, 1894 accepted as Navicula petitiana Grunow in Cleve, 1881 (new combination reference)
Caloneis castracanei var. philippinarum Cleve, 1894 (original description)
Caloneis castracanei var. seychellensis Grunow ex Cleve, 1894 (original description)
Caloneis clavigera Cleve, 1894 (original description)
Caloneis clevei f. clevei (Lagerstedt) Cleve, 1894 accepted as Navicula clevei Lagerstedt, 1873 (new combination reference)
Caloneis columbiensis Cleve, 1894 (original description)
Caloneis consimilis var. consimilis (Schmidt) Cleve, 1894 accepted as Navicula consimilis Schmidt, 1874 (new combination reference)
Caloneis curvinervia (Grunow in Cleve) Cleve, 1894 accepted as Navicula curvinervia Grunow in Cleve, 1878 (new combination reference)
Caloneis dispersa (Grove & Sturt) Cleve, 1894 accepted as Navicula dispersa Grove & Sturt, 1887 (new combination reference)
Caloneis dusenii Cleve, 1894 (original description)
Caloneis egena (Schmidt in Schmidt et al.) Cleve, 1894 accepted as Navicula egena Schmidt in Schmidt et al., 1890 (new combination reference)
Caloneis elongatula (Pantocsek) Cleve, 1894 accepted as Navicula elongatula Pantocsek, 1889 (new combination reference)
Caloneis eugeniae (Cleve) Cleve, 1894 accepted as Navicula eugeniae Cleve, 1881 (new combination reference)
Caloneis eximia Grunow ex Cleve, 1894 (original description)
Caloneis formicina (Grunow in Cleve) Cleve, 1894 accepted as Navicula formicina Grunow in Cleve, 1878 (new combination reference)
Caloneis formosa var. quadrilineata Grunow ex Cleve, 1894 (original description)
Caloneis frater Cleve, 1894 (original description)
Caloneis galapagensis var. contracta (Grunow in Schmidt et al.) Cleve, 1894 accepted as Navicula contracta Grunow in A. Schmidt, 1890 (new combination reference)
Caloneis galapagensis var. galapagensis (Cleve) Cleve, 1894 accepted as Navicula gallapagensis var. gallapagensis Cleve, 1881 (new combination reference)
Caloneis galapagensis var. japonica Cleve, 1894 accepted as Navicula galapagensis var. japonica Cleve in Schmidt et al., 1890 (new combination reference)
Caloneis hardmaniana Cleve, 1894 (original description)
Caloneis holstii f. holstii (Cleve) Cleve, 1894 accepted as Navicula holstii Cleve, 1881  (new combination reference)
Caloneis kanitzii (Pantocsek) Cleve, 1894 accepted as Navicula kanitzii Pantocsek, 1892 (new combination reference)
Caloneis kinkeriana (Pantocsek) Cleve, 1894 accepted as Caloneis kinkeriana Truan in Cleve, 1892 (new combination reference)
Caloneis kryophila (Cleve) Cleve, 1894 accepted as Navicula kryophila Cleve, 1883 (new combination reference)
Caloneis ladogensis var. ladogensis (Cleve) Cleve, 1894 accepted as Navicula ladogensis Cleve, 1891 (new combination reference)
Caloneis lagerheimii Cleve, 1894 (original description)
Caloneis latefasciata (Grunow) Cleve, 1894 accepted as Navicula latefasciata var. latefasciata Grunow in Cleve & Grunow, 1880 (new combination reference)
Caloneis latevittata (Pantocsek) Cleve, 1894 accepted as Navicula latevittata Pantocsek, 1892 (new combination reference)
Caloneis latiuscula f. latiuscula (Kützing) Cleve, 1894 accepted as Navicula latiuscula var. latiuscula Kützing, 1844 (new combination reference)
Caloneis latiuscula var. africana Cleve, 1894 (original description)
Caloneis lepidula var. lepidula (Grunow in Van Heurck) Cleve, 1894 accepted as Navicula lepidula Grunow, 1880 (new combination reference)
Caloneis liber f. bicuneata (Grunow) Cleve, 1894 accepted as Navicula bicuneata Grunow, 1860 (new combination reference)
Caloneis liber f. convexa Cleve, 1894 (original description)
Caloneis liber f. genuina Cleve, 1894 (original description)