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| No. | Valid Name | Author | English Name |
| 1. | Microphis aculeatus | (Kaup, 1856) | |
| 2. | Microphis argulus | (Peters, 1855) | Flat-nosed pipepfish |
| 3. | Microphis brachyurus | (Bleeker, 1854) | Short-tailed pipefish |
| 4. | Microphis caudocarinatus | (Weber, 1907) | Slender pipefish |
| 5. | Microphis cruentus | Dawson & Fourmanoir, 1981 | Dumbéa river pipefish |
| 6. | Microphis cuncalus | (Hamilton, 1822) | Crocodile-tooth pipefish |
| 7. | Microphis deocata | (Hamilton, 1822) | Deocata pipefish |
| 8. | Microphis dunckeri | (Prashad & Mukerji, 1929) | |
| 9. | Microphis fluviatilis | (Peters, 1852) | Freshwater pipefish |
| 10. | Microphis leiaspis | (Bleeker, 1854) | Barhead pipefish |
| 11. | Microphis lineatus | (Kaup, 1856) | Opossum pipefish |
| 12. | Microphis manadensis | (Bleeker, 1856) | Menado pipefish |
| 13. | Microphis mento | (Bleeker, 1856) | |
| 14. | Microphis millepunctatus | (Kaup, 1856) | Shorttail pipefish |
| 15. | Microphis pleurostictus | Peters, 1868 | |
| 16. | Microphis spinachioides | (Duncker, 1915) | Spinach pipefish |