Vitamin D has extensive anti-fibrotic, anti-inflammatory, and insulin-sensitizing properties, in addition to involvement in immune-metabolic pathways within the gut-adipose tissue-liver axis. This study aims to assess the association between vitamin D deficiency, metabolic dysfunction and NAFLD which is still controversial. Patients and Methods: Cross sectional study that included 170 subjects; 85 cases with fatty liver and 85 healthy controls. After measurement of BMI, both studied groups were subjected to the following laboratory investigations: vitamin D, liver enzymes, random blood glucose, HbA1C, cholesterol, TG, LDL, HDL and uric acid. Results: Vitamin D deficiency was associated with many metabolic dysfunction parameters. Regarding NAFLD: in univariate analysis, vitamin D deficiency, male sex, overweight and obesity, hypercholesterolemia, hyper-glycaemia, and elevated liver enzymes were the risk factors. Meanwhile multivariate analysis showed that the risk factors included male sex, overweight and obesity. Sensitivity and specificity of vit D deficiency, at a cutoff value of ≤18.5 mg/mL, were 68.24% and 52.92%, respectively. Sensitivity and specificity of hypertriglyceridemia, with a cutoff value of >113 mg/dL, were 77.65% and 48.24%, respectively. At cutoff value of >5.2%, sensitivity and specificity of HBA1C were 69.41% and 56.47%, respectively. Conclusion: Vitamin D deficiency is associated with high prevalence of metabolic changes. Thus, early detection and treatment of such deficiency can improve fatty liver disease and its associated metabolic changes, hence, preventing progression into liver cirrhosis.