BackgroundHypertension, signalled by persistently high systolic and diastolic blood pressure is a major threat to public health globally. Especially in sub-Saharan African countries, this coexists with high burden of other infectious diseases, creating a complex public health situation which is difficult to address. Tackling this will require targeted public health intervention based on evidence that well defines the at risk population. In this study, using retrospective data from two referral hospitals in Burundi, we model the risk factors associated with hypertension in Burundi MethodsRetrospective data of a sample of 353 randomly selected from a population of 4,380 patients admitted in 2019 in two referral hospitals in Burundi: Military and University teaching hospital of Kamenge. The predictive risk factors were carried out by fixed effect logistic regression. Model performance was assessed by Area under Curve (AUC). Model was internally validated via bootstrapping with 2000 replications. All analysis were conducted in R.ResultsOverall, 16.7% of the patients were found to be hypertensive. After adjustment of the model for cofounding covariates, associated risk factors found were advanced age (40 years) AOR: 6.03, 95% CI: 1.86- 17.19) and above 60 years, (AOR: 12.76, 95% CI: 3.30 – 14.26). Patients comorbid with chronic kidney failure were 4.95 times more (95% CI: 1.83-15.82) to be hypertensive and among those with family history of hypertension, the adjusted risk were twice. Compared to non-smokers, smokers were 2.87 times more likely to develop hypertension (95% CI: 0.87 – 9.15).The highest probabilities are observed to patients who are at the same time smokers, overweight, with chronic kidney failure, family history with hypertension with secondary or university as highest educational level. The model had an excellent predictive performance (AUC), accurately predicting 88.71% (95% CI: 84.17%-92.5%) of all observations Conclusion The relatively high prevalence and associated risk factors of hypertension in Burundi raises a call for concern especially in this context where there exist an equally high burden of infectious diseases, other chronic diseases including chronic malnutrition. Targeting interventions based on these identified risk factors will allow judicious channel of resources and effective public health planning.