Using similar server as map of ownership and perms
http://serverfault.com/questions/141934/restore-default-ownership-in-centos-after-terrible-chown

find / /usr /home -xdev | xargs getfacl -P > /tmp/permissions_from_server1
setfacl --restore=/tmp/permissions_from_server1

cPanel account level fixes
https://raw.githubusercontent.com/PeachFlame/cPanel-fixperms/master/fixperms.sh
http://thecpaneladmin.com/files/fixperms.sh.txt

cPanel fixing mail (valiases)
http://thecpaneladmin.com/files/valiasesfix.sh.txt