Background: Non-communicable diseases(NCDs) are increasing rapidly in sub-Sahara Africa including Uganda. Knowledge of the effect of long-term antiretroviral therapy(ART) and emergence of NCDs on hospital utilization remain scant. This study aimed to assess the burden of major NCDs and predictors of mortality among hospitalized HIV positive patients in the medical wards at Lira regional referral hospital in Northern Uganda.Method: We conducted a retrospective cross-sectional chart review of hospitalized patients from the male and female medical wards between 2016 and 2020. The prevalence of NCDs was estimated and status at discharge determined. Binary and multi-variable regression analyses were performed to determine predictors of mortality with statistical significance set at 0.05 p-value. Results: A total of 445 patient files were examined, with 49 percent (n=218) of them revealing HIV status. Males made up 53% of the total number of patients studied (n=226). In HIV positive patients, the prevalence of at least one NCD, two NCDs, and three or more NCDs multi-morbidity was 73 percent, 16 percent, and 2 percent, respectively. In HIV negative controls, the prevalence of at least one NCD, two NCDs, and three or more NCDs was 62 percent, 28 percent, and 6 percent, respectively, compared to HIV positive controls. Cardiovascular diseases, diabetes, cancers, chronic lung disease, liver diseases, and mental disorders were found in 19.52 percent (CI: 14.67-25.49) of HIV positive patients versus 36.99 percent (CI: 30.06-44.50), 4.4.65 percent (CI: 02.51-08.51) versus 22.65 percent (CI: 17.57-29.74 p-value= 0.001), 13.55 percent (CI: 09.56-18.87) versus 9. 56 percent (CI: 05.99-14.89), 04.65 percent (02.51-08.47) versus 5.62(03.03-10.18), 27.91 percent (22.27-34.32) versus 29.53 (23.48-36.41), and 26.63 percent (21.10-33.02)versus 06.82 (03.89-11.68,p-value-=<0.001). In HIV patients, being middle-aged (40-50 years) was the sole independent predictor of mortality.Conclusion. HIV positive inpatients had a lower prevalence of major NCDs than HIV negative inpatients, albeit, this was not statistically significant except for diabetes mellitus and mental disorders. Increasing age is a significant predictor of mortality in hospitalized HIV positive patients. Prioritizing screening infrastructure and service capacity to reduce the burden of NCDs in PLHIV is critically important.