It would seem that while we could get rid of alignments for players, the concept of things being innately good and evil is such a classic part of both D&D and most high fantasy that it would be silly to expect it removed. There will always be good dieties and diobolical forces, and there should be some interplay between say holy and good spells and innately evil creatures.
Or to put it another way if you find a holy sword, it's handy to know who it made to smite.
Or to put it another way if you find a holy sword, it's handy to know who it made to smite.