If the alternate timeline take works for you fine. But frankly you are holding something against this Star Trek show that every Star Trek show has been guilty of. There's never been 100% tight continuity in the Star Trek franchise. Even the original series contradicted itself.
The one key difference is that, for the most part, previous contradictions are accidental. The redesign of the Klingons being the only deliberate contradiction I can think off the top of my head. And the new Klingons were just as controversial as the new Enterprise when they debuted.