Background: Optimal antithrombotic regimens to prevent recurrent stroke in patients with ischemic stroke due to AF and atherosclerotic large-vessel stenosis remains unknown. Aims: This study aimed to evaluate the effect of multiple antithrombotic therapies on outcomes at 1-year after ischemic stroke due to two or more causes. Methods: Based on the linked data, we identified 862 patients with ischemic stroke due to AF and large artery atherosclerosis in the relevant arteries. These patients were categorized into three groups, according to their antithrombotic therapies at discharge after ischemic stroke: those receiving 1) antiplatelet agents, 2) oral anticoagulants (OAC), and 3) antiplatelet agents plus OAC. The study outcomes were recurrent ischemic stroke, composite outcomes, including ischemic stroke, myocardial infarction, intracerebral hemorrhage and death, and major bleeding after 1 year. Inverse probability of treatment weighting (IPTW) was used to balance the three groups using propensity scores. Results: Among 862 patients (mean age: 72.6 years, men: 58.4%), 169 (19.6%) were treated with antiplatelet agents, 405 (47.0%) were treated with OAC, and 288 (33.4%) were treated with antiplatelet agents and OAC. After applying IPTW, only OAC had a significant beneficial effect on the 1-year composite outcome (hazard ratio [HR]: 0.37, 95% confidence interval [CI]: 0.23–0.60, P < 0.001) and death (HR: 0.35, [95% CI: 0.19–0.63], P < 0.001). Patients treated with a combination of antiplatelet agents and OAC had an increased risk of major bleeding complications (HR: 5.27, [95% CI: 1.31–21.16], P = 0.019) compared with those treated with antiplatelet agents alone. However, there was no significant difference in the risk of 1-year recurrent stroke among the three groups. Conclusion: This study demonstrated that OAC monotherapy was associated with lower risks of composite outcome and death in patients at 1-year after ischemic stroke due to AF and atherosclerotic stenosis. In addition, the combination of an antiplatelet agent and OAC had a high risk of major bleeding.