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When you upgrade, selinux policy is upgraded as well. Considering the complexity of selinux policy, my guess is that it is easier and more reliable to start with a clean slate rather than trying to preserve any booleans or other selinux customizations.

Upgrades will also reset confined users for example.

If you want a better answer, consider filing a bug report or asking on IRC , #fedora-selinux

https://fedoraproject.org/wiki/How_to_use_IRC

See also - https://docs.fedoraproject.org/en-US/Fedora/13/html/Security-Enhanced_Linux/