The late nineteenth and early twentieth century saw dramatic new developments in climatic medicine, particularly the institutionalisation of thinking about tropical hygiene. There were also more limited efforts to understand how hygiene theories should be applied in a polar environment. Studying the British National Antarctic Expedition (1901–1904), led by Robert Falcon Scott, helps us understand how these practices had both similarities and differences from applications of hygiene in other contexts. The expedition offers unique insights into debates about hygiene, environment, and health because of the important, and well documented, role that medics, naval officers and scientists played in organising logistical arrangements for the journey to Antarctica. In analysing the writings of expedition members and organisers, this paper examines the ways that the universal tools of hygiene theories were applied and developed in a polar environment. Many of the most acute threats seemed to come not from the outside environment but from the explorers’ supplies and equipment. There was general agreement on many issues. Yet the expedition’s organisers, medics and leadership had numerous arguments about the best way to preserve or restore health. These disagreements were the product of both competing medical theories about the cause of disease and the importance of embodied (and somewhat subjective) observations in establishing the safety of foods, atmospheres and environments in this period.