The catch-all of "Academic Jewish Studies" covers a wide range of topics. However as a general rule those studies do not necessarily subscribe to postulates which conform to normative orthodox Judaism. That is to say that academic Jewish studies isn't in principle concerned with whether or not those studies support or deny basic Jewish tenets such as divine authorship of the Pentateuch, that the standard text of the bible as we have it today has not changed since the times of Moses or other things which contravene Rambam's principles of faith (I am using Rambam as an example and by no means do I wish to imply that his principles are halachicly binding).
My understanding from reading the FAQ is that J.SE is "is for those who base their lives on Jewish law and tradition and anyone interested in learning more." I would like to know if this precludes questions about or based on Academic Jewish Studies.