Greater scaup faces numerous threats, the most significant challenge to their survival is habitat degradation caused by a mix of human development and runoff. Greater scaup, when moulting and during the winter, are threatened by escalated levels of organochloride contaminants. Oil and sewage pollution also threaten this duck. Since 80% of the greater scaup population winters in the urbanized part of the Atlantic Flyway, these ducks are subject to high levels of organic contaminates, along with increased levels of heavy metals in foods and habitat. A joint group of American and Canadian scientists researching scaup migration across the Great Lakes found that
New Zealand scaup for twenty to thirty seconds and go down three metres to look for aquatic plants, small fish, water snails, mussels and insects. It is sometimes seen with the Australian coot ("Fulica atra"); it is thought that the scaup takes advantage of the food stirred up by the coots as they fossick for shrimps. It is found throughout both the North and South Islands of New Zealand in deep freshwater lakes and ponds. Unlike other members of this genus, the scaup is not migratory, although it does move to open water from high country lakes if they become frozen in winter.