As a result of increased reef degradation, restoration efforts are now being widely applied on coral reefs. However, outplanted coral survival in restoration zones varies substantially, and coral mortality can be a significant limitation to the success of restoration efforts. With reef restoration now occurring within, and adjacent to, nationally preserved and managed marine parks, the potential risks of mortality events and disease spread to adjacent marine populations need to be considered, particularly as these ecosystems continue to decline. We review the causes and consequences of coral mortality and disease outbreaks within the context of coral restoration, highlighting knowledge gaps in our understanding of the restored coral microbiome and discussing management practices for assessing coral disease. We identify the need for research efforts into monitoring and diagnostics of disease within coral restoration, as well as practices to mitigate and manage coral disease risks in restoration.