Section Access is handled by the app developers, they should know how to develop the app so when it is distributed, the respective section access remains.
Document Administrators cannot assign licenses, folder supervisors can, and only Document CALs. They will have to manually assign after the first distribution in the QMC > Documents > User Documents > Document CALs.
Named User CALs are handled by the full access to QMC (members of local QlikView Administrators group).