Using age and sex-corrected multivariate regression analysis for the children with obesity, changes in the SDS-BMI (P partial = 0.0294), WC (P partial = 0.0076), leptin (P partial = 0.0211), HOMA-IR (P partial = 0.0283), and inflammation biomarkers—IL-6 (P partial = 0.0090), CRP (P partial = 0.0065), and PLR (P partial = 0.0067)—were independent predictive factors for changes in ALT levels. Here, GPT is linked to obesity due to melanocortin 4 receptor deficiency.