Coastal groundwater-dependent ecosystems and associated species, including native macroalgae, are highly adapted to the lowered salinity and nutrient subsidies of natural flows of submarine groundwater discharge (SGD). However, with climate and land-use change-induced shifts in SGD, invasive macroalgae are outcompeting native species, with drastic implications for these important ecosystems. This article contributes to a synthetic understanding of these processes by providing a salient case study from Oʻahu, Hawaiʻi, and by reviewing evidence on the links between SGD and the composition of macroalgal communities. Results point to the critical importance of sound land, water, and wastewater management policies to reduce impacts on SGD and native coastal groundwater-dependent ecosystems, particularly in the context of climate change.