I think the problem comes from the builder and can’t be resolved directly from the project settings.
Anyway, they’re just warnings and don’t affect the publication of the application.
By the way, only the “Your app uses deprecated APIs or parameters for edge-to-edge” went away after updating my app compiled with Kodular 2025.10.5. The other two are still there:
Related comment on a Flutter issue that clarifies that the first warning is going to harmlessly (but annoyingly) stick around because the Play Console isn’t smart enough to know that the app already handles edge-to-edge: