Metabolic syndrome (MS) directly increases the risk of cardiovascular diseases. Childhood and adulthood have been the most studied in MS, leaving aside the young adult population. This study aimed to compare the epidemiological probabilities between MS and different anthropometric parameters of body composition. Using a cross-sectional study with the sample of 1351 young adults, different body composition parameters were obtained such as Waist Circumference (WC), Body Mass Index (BMI), Body Fat% (BF%), Waist-to-Height Ratio (WHtR), and Waist-Hip Ratio. The Bayes Theorem was applied to estimate the conditional probability that any subject developed MS with an altered anthropometric parameter of body composition. Areas under receiver operating characteristic curves (AUCs) and adjusted odds ratios of the five parameters were analyzed in their optimal cutoffs. The conditional probability of developing MS with an altered anthropometric parameter was 17% in WHtR, WC, and Waist-hip R. Furthermore, body composition parameters were adjusted by age, BMI, and gender. Only WHtR (OR = 9.43, CI = 3.4–26.13, p < 0.0001), and BF% (OR = 3.18, CI = 1.42–7.13, p = 0.005) were significant, and the sensitivity (84%) and the AUCs (86%) was higher in WHtR than other parameters. In young adults, the WHtR was the best predictor of metabolic syndrome.