Abstract: Natural products from marine-derived fungi have attracted considerable attention in the recent two decades. Indolediketopiperazines are one of the most important classes of marine natural products, mainly discovered from the fungal genera Penicillium, Aspergillus and Eurotium. These compounds span a wide range of chemical structures and bioactivities. This review summarizes 155 indolediketopiperazines that were discovered from marine-derived fungi from 2000 to early 2019 and primarily focuses on their chemical diversity and biological function.