The Web Ui is not ignoring all of the known libraries that it should.
Use the test application adit-arendus-1.1.24.ear and analyze with a target of eap:7
If you analyze with the CLI you get a much smaller number of SP than with the web Ui as embedded libraries such as quartz-1.8.3.jar are being analyzed by the Web Ui when they should be ignored.
Interestingly the org.quartz package is recognized as a third party. Yet the archive and its packages are still getting analyzed.

This issue has been present in the Web Ui since at least version 5.2.1
A workaround exists of resetting the selected paackges and the analysis works fine, ignoring the known libraries.

This might be a quirk of this specific application. It does not happen with other test apps such as AdministracionEfectivo.ear