| Eupatorium cylindricum McVaugh, 1972 |
| Eupatorium cymuliferum (B.L. Rob.) B.L. Turner, 1989 |
| Eupatorium daleoides (DC.) Hemsl., 1881 |
| Eupatorium dasycarpum A. Gray ex S. Watson, 1887 |
| Eupatorium decussatum Klatt, 1896 |
| Eupatorium deltoideum Jacq., 1798 |
| Eupatorium denticulatum Vahl, 1794 |
| Eupatorium desquamans B.L. Rob., 1900 |
| Eupatorium dibollii (R.M. King & H. Rob.) B.L. Turner, 1989 |
| Eupatorium diffusum Vahl, 1794 |
| Eupatorium dissectum (Hook. & Arn.) Benth., 1845 |
| Eupatorium divergens Less., 1830 |
| Eupatorium diversifolium Schrad., 1829 |
| Eupatorium dolichobasis McVaugh, 1972 |
| Eupatorium donnell-smithii J.M. Coult., 1891 |
| Eupatorium drepanophyllum Klatt, 1894 |
| Eupatorium dryadeum DC., 1838 |
| Eupatorium dryophilum B.L. Rob., 1901 |
| Eupatorium durangense B.L. Rob., 1907 |
| Eupatorium durangense var. angustius B.L. Rob., 1907 |