Background: How HLA-A26 modulates Behçet’s disease ocular lesions such as iridocyclitis and retinochorioiditis has not been scrutinized. Methods: Ministry of Health, Labour and Welfare of Japan provided us a database of Behçet’s disease patients who were registered from 2003 to 2014. We selected patients who satisfied International Criteria for Behçet’s Disease and whose data for HLA-A26 was available. Results. Eligible 557 patients consisting of 238 men (42.7%) and 319 women (57.3%), whose median age was 38 years old (interquartile range (IQR) 29-47) were analyzed. Prevalence of general ocular lesions, iridocyclitis, retinochorioiditis, and chronic lesions were 43.1%, 30.7%, 34.1%, and 17.4%, respectively. The prevalence of ocular lesions was higher among HLA-A26 carriers compared to that among HLA-A26 non-carriers with odds ratio (OR) of 2.5 (95% confidence interval (95% CI) 1.8-3.5, P < 0.001) for general ocular lesions, OR of 2.5 (95% CI 1.7-3.6, P < 0.001) for iridocyclitis, OR of 2.8 (95% CI 1.9-4.0, P < 0.001) for retinochorioiditis, and OR of 2.7 (95% CI 1.7-4.3, P < 0.001) for “chronic ocular lesion following iridocyclitis or retinochorioiditis.” The HLA-A26 had a similar impact on ocular lesions between HLA-B51 positive and negative cases (Breslow-Day test, P > 0.05). However, the HLA-A26 had a larger impact on iridocyclitis for men compared to women (Breslow-Day test, P = 0.040). The male HLA-A26 carriers had higher risk of iridocyclitis with OR of 3.4 (95%CI 2.0-5.9, P <0.001), while the OR for women was 1.5 (95%CI 0.9-2.6, P = 0.146). Conclusion: HLA-A26 carriers had higher risk for iridocyclitis and retinochorioiditis. However, the impact was more prominent for men.