Early identification of type 2 diabetes mellitus (T2DM) risk factors prevents its consequences. Fecal volatile organic compounds (FVOCs) can serve as disease biomarkers. The objective was to compare nutritional condition, feeding habits, and FVOCs into low-risk and high-risk (HR) T2DM developed in the Mexican population. A cross-sectional study was conducted in healthy adult volunteers between 18 and 59 years of age from Tepic, Nayarit, México. The FVOCs p-cresol and acetic, propionic, butyric, and valeric acids were evaluated. The values of body mass index (BMI), body fat, visceral fat index, metabolic age, and basal metabolic rate were higher in the HR group. In addition, high total calorie intakes and high macronutrient calorie intakes were found in the HR group. Both groups showed the same values for the evaluated FVOCs. Through principal component analysis, it was found that when BMI, metabolic age, weight, and visceral fat index increase, adults will be more likely to be at high risk for developing T2DM.