A taxonomical study was made of species of the families (Calanidae, Scolecithricidae, Aetideidae, Metridinidae, Candaciidae, Eucalanidae, Centropagidae, Acartiidae, Pseudodiaptomidae, Tortanidae, Paracalanidae, Calocalanidae, Clausocalanidae, Augaptilidae, Heterorhabdidae, and Phaenidae), recently collected from nine sites in Indonesian waters. Ninety nine species were recorded, including one species Candacia ishimarui Mulyadi, 1997, recently described from this area, and nine species, Scottocalanus helenae (Lubbock, 1856), Candacia guggenheimi Grice & Jones, 1960, Eucalanus parki Fleminger, 1973, Centropages brevifurcus Shen & Lee, 1963, C. sinensis Chen & Zhang, 1965, C. tenuiremis Thompson & Scott, 1903, Acartia sinjiensis Mori, 1940, Pseudodiaptomus incisus Shen & Lee, 1963, and P. philippinensis Walter, 1986, reported for the first time from Indonesian waters, while three other species, Undeuchaeta sp., Toratnus sp., and Bestiola sp. appear to be new to science. The remain 86 species, Calanoides philippineneis Kitou & Tanaka, 1969, C. pauper (Giesbrecht, 1888), U. vulgaris (Dana, 1849), C. darwini (Lubbock, 1860), Neocalanus gracilis (Dana, 1849), Scottocalanus farrani (T. Scott, 1894), S. setosus A. Scott, 1909, S. thomasi A. Scott, 1909, S. thori With, 1915, Scolecithrix danae (Lubbock, 1856), S. bradyi Giesbrecht, 1888, Euchirella bella Giesbrecht, 1888, E. curticauda Giesbrecht, 1888, E. galeata Giesbrecht, 1888, E. maxima Wolfenden, 1905, E. messinensis indica Vervoort, 1949, E. pulchra (Lubbock, 1856), Undeuchaeta intermedia A. Scott, 1909, U. plumosa (Lubbock, 1853), Chirundina streetsi Giesbrecht, 1895, Chiridius gracilis Farran, 1908, Gaetanus minor Farran, 1905, Euaetideus acutus (Farran, 1929), Pelurommama abdominalis (Lubbock, 1856), P. gracilis (Claus, 1863), P. robusta (Dahl, 1893), P. xiphias (Giesbrecht, 1888), Euchaeta concinna dana, 1849, E. longicornis Giesbrecht, 1888, E. marina (Prestandrea, 1833), E. media Giesbrecht, 1888, E. palan Mori, 1937, E. wolfendeni A. Scott, 109, Candacia bipinnata (Giesbrecht, 1889), C. bradyi A. Scott, 1909, C. catula (Giesbrecht, 1889), C. curta (Dana, 1849), C. discaudata A. Scott, 1909, C. ethiopica (Dana, 1849), Paracandacia bispinosa (Claus, 1863), P. simplex (Gioesbrecht, 1889), P. truncata (Dana, 1849). Pareucalanus attenuatus (Dana, 1853), S. crassus (Giesbrecht, 1888), S. dentatus (A. Scott, 1909),, S. mucronatus (Giesbrecht, 1888), P. sewelli (Fleminger, 1973), S. subcrassus (Giesbrecht, 1888), S. subtenuis (Giesbrecht, 1888), Rhincalanus cornutus Dana, 1852, R. nasutus Giesbrecht, 1892, Centropages calaninus (Dana, 1849), C. furcatus (Dana, 1849), C. gracilis (Dana, 1849), C. orsini Giesbrecht, 1889, Acartia amboinensis Carl, 1907, A. bispinosa Carl, 1907, A. danae Goesbrecht, 1889, A. erythraea Giesbrecht, 1889, A. negligens Dana, 1849, A. pacifica Steuer, 1915, Acartiella nicolae Dussart, 1985, Pseudodidpatomus annandalei Sewell, 1912, P. aurivillii Cleve, 1901, P. clevei A. Scott, 1909, Toratnus barbataus (Brady, 1883), T. forcipatus (Giesbrecht, 1889), T. gracilis (Brady, 1883), Paracalanus aculeatus Giesbrecht, 1888, Acrocalanus gracilis Giesbrecht, 1888, A. longicornis Giesbrecht, 1888, Parvocalanus crassirostris (Dahl, 1894), Calocalanus plumulosus (Claus, 1863), C. pavo (dana, 1849), Clausocalanus arcuicornis (Dana, 1849), C. furcatus (Brady, 1883), Haloptilus longicornis (calus, 1863), Heterorhabdus papiliger (Claus, 1863), and Phaena spinifera Claus, 1863, were recorded in the present study. Descriptions, measurements, and figures are given for all species along with a review of their distribution in Indonesian waters and over the world' oceans, with taxonomic remarks, ecological notes, morphological variability, and restricted synonymies.