<b>Background:</b> Late presentation to care is associated with increased morbidity, mortality and healthcare cost. Objectives: To determine the prevalence of late presentation to care in Benin, describe its trends and identify risk factors associated. <b>Methods:</b> We conducted a retrospective analysis from 2003 to 2014 at the National HIV Referral Centre in Benin. The definition of the European Late Presentation Consensus Group (ELPCG) for late presentation to care was used. Late Presenters (LP) were defined as patients presenting to care with CD4 count below 350 cells/mm<sup>3</sup> or with an AIDS defining event, and patients with advanced HIV disease (AHD) were defined as persons with a CD4 count below 200 cells/mm<sup>3</sup>. <b>Results:</b> 5018 patients were included. Women accounted for 62.9%. Patients ranged in age from 18 to 62 years. 4233 patients (84.4%) were late presenters (LP) and 3126 (62.3%) were in Advanced HIV Disease (AHD). Late presentation decreased from 97.7% in 2003 to 78.7% in 2009. Between 2009 and 2014, there was no substantial decrease. Older age [Odds Ratio (OR) = 3.17; 95% Confidence Interval (CI) = [2.52 - 4.00], p < 0.001], male gender (OR = 1.85; 95% CI = [1.56 - 2.22], p < 0.001) and non-schooling (OR = 2.13; 95% CI [1.77 - 2.56], p < 0.001), were associated with late presentation to care. Being diagnosed through the Prevention of Mother To Child Transmission (PMTCT) of HIV, appeared as a protective factor (OR = 0.20; 95% CI [0.15 - 0.27], p < 0.001). <b>Conclusions:</b> The prevalence of late presentation to care in Cotonou is alarming. This prevalence has been on a declining trend, but it remains extremely high. In order to reach the first 90 of the 90-90-90 targets, policymakers should promote the Provider-initiated HIV Testing and Counselling in all health facilities, modeled on the existing PMTCT of HIV screening during pregnancy.
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