Our application relies on spring dependency injection, which fails to work after the application is transformed using this migration plugin.
When manually converting the application, the dependency injection seems to work as expected. After investigation I could see that the manually converted application included more transformed spring jars (spring-beans and spring-context) compared to the application produced by this migration plugin.
This seems to be related to the list of artifacts explicitly excluded from transformation, see JakartaEeMigrationExtension.ARTIFACTS_WITH_INTENTIONAL_JAVAX.