Easy enough. Only 2 big elements we've got to contend with, is destruction of Vulcan, and death of Amanda. And this only fucks with the Vulcan-cenric episodes and movie scenes. Okay, we only see a teensy sliver of Vulcan at a time in those ones anyway, so, just imagine those happen on whatever colony world the Vulcan survivors settled on, and everyone vital to those episodes happened to magically be among the survivors. And Amanda? Eh, just imagine she's a guilt-ghost in Spocks' head like the people that House, or Tommy Gavin see. Bam, solved. S'fun to solve goofy little problems like that. Dunno why.
I'd say it's pretty darn easy: time travel. It's a blanket explanation for any differences between the two realities. Or better yet, the cannonites, can simply enjoy the continuance of their beloved franchise with the understanding that continuity was never meant to be the focus of Star Trek.
The whole "different timeline" thing is enough for me. If you cared enough, you could derive a rationalization from that to explain every change. I would like to see the original timeline revisited, though. Seems like the destruction of Romulus might shake things up a bit.
Or the cannonites could just sit in their bedrooms and cry whilst Abrams gives their inner 13 year old the Roman Polanski treatment...
The timelines are different. TOS, as we know it, has now never happened. Can't you just feel the anger? "An entire fictional universe has been swept away! Even though the original episodes that never happened in reality are still available to watch and enjoy, I will never be able to watch and enjoy them knowing a fictional movie now makes it so they never existed in the fictional world inside the movie! Even though they still do in real life. As old TV shows. But now no longer part of the currently running fictional universe. Goddamn you, J.J. Abrams..."
For me, Abramstrek goes into the same Not in My Universe round file as "Spock's Brain" and The Shatner Movie.
I hear in the sequel, JJ Abrams builds a time machine and goes to sometime before 1991, beats up Gene Roddenberry and anally rapes him a few times, while a cameraman films the violation, and then returns to our time with an appropriate follow-up to the 2009 film. Mainstream audiences will continue to come in droves because they say it has magic of The Original Series--even though none of them have seen an episode in their lives. They also chide detractors of the film with the usual mindless cliched "get a life, nerd" response.
I prefer to be a pessimist. Archer is alive. And since all the time stuff only happened around the time of Kirk's birth, "Enterprise" is still canon.
Tuvok's death is really under rated IMO. Without Tuvok, no one would infilitrate the Maquis raider in the badlands. Captain Janeway would not be...compelled to go after him and thus Voyager would not be wooshed across the galaxy for its 3 hour tour from hell. Thus, Trek 11 = No Voyager!
Let's face it, the real reason the Supernova that destroyed Romulus happened, was Enterprise ripping the Space/Time continuum apart. The Universe fought back. Presto! New Pine Fresh Universe! (no Canadian bacon)
If the writers were ever inclined to bring him or Voyager back, you'd find that the odds are whatever they say that are.