Nutrient enrichment from shrimp aquaculture poses an increasing environmental threat due to the industry’s projected rapid growth and unsustainable management practices. Traditional methods to monitor impacts emphasize water quality sampling; however, there are many advantages to bioindicators, especially in developing countries. We investigated the usefulness of three bioindicators—growth, tissue nitrogen content and nitrogen stable isotope signature (δ 15N)—in the tropical red macroalga Acanthophora spicifera. Algae were collected, cultured, and deployed in a spatial array around the outflow from a shrimp farm in Moorea, French Polynesia, to detect nitrogenous wastes. All three parameters were highest adjacent to the shrimp farm indicating nutrient enrichment, and δ 15N values confirmed the shrimp farm as the dominant nutrient source (5.63–5.96‰). Isotope ratios proved the most sensitive indicator, as δ 15N signatures were detected at the most distant sites tested, confirming their usefulness in tracing nutrients and mapping the spatial extent of enrichment.