The aim of this study was to examine sex-specific relationships between insulin resistance (IR) and bone mineral content (BMC) according to age group and weight status. A population-based sample of 618 Korean adolescents (315 male and 303 female), aged 10-19years from the Fourth Korea National Health and Nutrition Examination Survey, 2009. They were divided into three age groups (10-12; 13-16; 17-19years) and two weight groups (non-overweight vs. overweight). IR was assessed using the homeostatic model of assessment of IR (HOMA-IR). Soft tissue composition (fat and lean mass) and BMC of the whole body, proximal femur, and lumbar spine were measured by dual energy X-ray absorptiometry. Adiposity (body mass index, waist circumference, or soft tissue composition), age, height, total cholesterol, triglycerides, high density lipoprotein cholesterol, alkaline phosphatase, serum vitamin D, dietary calcium and energy intake, and menarche for females were adjusted using general linear models of a complex sampling design. Higher HOMA-IR was associated with a decrease in BMC in male adolescents aged 13-19years after adjustment for adiposity and other confounders, while the associations were not significant in male adolescents aged 10-12years and female adolescents. After adjustment for adiposity and confounders, the inverse associations between HOMA-IR and BMC were more consistent in non-overweight male adolescents than in other weight groups (overweight males and non-overweight and overweight females). The unfavorable effect of IR on BMC appears to be more obvious in males aged 13-19years or non-overweight males than in females.