The new Wrath of Khan Blu-ray has the theatrical (without the 2009 digitally-repaired Starfleet stairs), 2002 Director’s Cut, and 2016 Director’s cut (one dialog exchange removed). But it also has this deliberate creative decision:
http://trekcore.com/blog/2016/06/one-more-change-in-the-new-star-trek-wrath-of-khan-directors-cut/
Oops.