Background Previous studies of the health effects of low‐fat milk or dairy consumption on the metabolic syndrome have yielded inconsistent results. The present study aimed to investigate the effects of low‐fat milk consumption on traits associated with the metabolic syndrome, as well as inflammatory and atherogenic biomarkers, in Korean adults with the metabolic syndrome. Methods Overweight Koreans with the metabolic syndrome (n = 58) were recruited and randomly assigned to either the low‐fat milk or control group. The low‐fat milk group was instructed to consume two packs of low‐fat milk per day (200 mL twice daily) for 6 weeks, and the control group was instructed to maintain their habitual diet. Clinical investigations were conducted during the screening visit, on study day 0, and after 6 weeks. Results No significant differences in changes in body mass index, blood pressure, lipid profile and adiponectin levels, as well as levels of inflammatory markers, oxidative stress markers and atherogenic markers, were found between the low‐fat milk and control groups. However, compared to the controls, significant favourable decreases in serum soluble vascular adhesion molecule‐1 and endothelin‐1 levels were found in the 12 subjects with high blood pressure and in the 18 subjects with hypertriglyceridaemia in the low‐fat milk group. Conclusions The present study did not demonstrate an overall beneficial effect of low‐fat milk consumption in subjects with the metabolic syndrome. However, low‐fat milk consumption may have a favourable effect on atherogenic markers in subjects with high blood pressure or hypertriglyceridaemia.