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
Lesser scaup be recognizable by the purple instead of green sheen of the head and a darker back. But this is unreliable because it varies according to light conditions, and these birds are often too far away from the observer to make out any sheen at all. The best trait—if the primary remiges are not visible—is the shape of the head: in the greater scaup drake, the forehead is usually quite massive, whereas the nape presents a smooth shallow curve and may appear almost straightly sloping. The lesser scaup drake presents the opposite shape, with a less bulging forehead and a nape