Of course Star Trek Into Darkness includes some big homages and reverences to Star Trek history including Khan, Section 31 and beyond which are key parts of the film. But there are also some more subtle ‘easter egg’ references to Star Trek history and beyond included in the film. Some of which you may have already spoted and maybe some you didn’t.
I actually got most of these. The interesting one to me is Praxis. The first thing I thought to myself when I saw the Klingon home world — no, LITERALLY the very first thing I thought — was, “what the heck, why is Praxis already blown up? Did someone somewhere not tell J.J. and the team that Praxis didn’t blow up until 2293? I guess the idea is that the Klingons accelerated their over-mining and whatnot due to the change in the timeline and the event happened sooner than it did in the original timeline.
Eh whatever. Read the article, it’s pretty fun.