Infectious marine diseases have profound impacts on fisheries and aquaculture through their effects on growth, fecundity, mortality, and marketability. Economic losses have motivated research to minimize the negative impacts of disease on these industries. However, this relationship is reciprocal, as fishing and aquaculture can shape disease transmission. The effects of fisheries and aquaculture on disease are scale dependent, with different outcomes at the population, metapopulation, community, and ecosystem levels. Management approaches are limited in fisheries, and intense in aquaculture, sometimes with undesirable impacts on wild species. Management needs can be particularly intense in hatcheries, where stocks are sensitive and kept at high densities. Increased interest in microbiome–disease interactions are opening up new opportunities to manage marine diseases in aquaculture. Solutions for marine diseases in fisheries and aquaculture may ultimately improve human health by reducing exposure to pathogens and increasing nutrient quality, but could negatively impact human health through exposure to antibiotics and other chemicals used to treat parasites.