As per
Configuring the GPOADmin Server online technical documentation, the best practice is to use AD LDS as the configuration store. However, in large environments, SQL server is the recommended option.
Based on our experience troubleshooting this product, we recommend SQL over AD LDS since SQL is easier to troubleshoot and also provides the following benefits:
1- Best performance.
2- Easy to maintain. You may backup your SQL database and restore it if needed.
