Abrams shoots his movies on 35mm film. 3D cameras are digital-only, so the film will not be natively 3D.
I recall reading something about them shooting scenes as written, with all actors in place and dialogue spoken, and then for each scene doing a "second pass" through the empty set, duplicating exactly all of the camera movements of the filmed "live" take. Would that second pass be with a 3D or digital camera, do you suppose?
... A car chase? This isn't Star Trek!! "My name is James Tiberius Kirk!"
"Siberius". It was confirmed using Software, remember?