There is no difference. The renaming was merely a mechanism to separate the supported app servers (EAP) from the community versions. From what I recall, EAP 4.3 was not one of the selections available under "JBoss a division of Red Hat" (no, I am not going to reinstall and older version of Eclipse and JBoss Tools to verify this), and every selection under "JBoss Community" should be what was once under "JBoss a division of Red Hat".
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