Whatever your view on whether it’s a pro or con for the ensemble and storytelling, SNW ‘Lost in Translation’ having covered off the ‘met him when he made fleet captain’ reference to Pike in TOS, there seems to be a great deal of flexibility for SNW to keep bringing Jim Kirk into its stories.
Here’s one unexpected take.
So what does that mean for Kirk? We have to wait until 2265 for him to take over as captain of the Enterprise, right? Well, maybe not. Canon is oddly vague on the handover from Pike to Kirk. In fact, only one episode of TOS actually takes place in 2265: “Where No Man Has Gone Before,” the second pilot. There’s also nothing that indicates Kirk didn’t serve on the Enterprise in another role before getting promoted. If, in theory, Pike were to step down and someone else became an interim captain, then nothing is stopping Kirk from serving on the Enterprise before 2265.
they have the actors say “these events weren’t supposed to happen” repeatedly on screen?
The purpose of the "time has been altered and we need to fix the timeline" conversation that occurs near the beginning of every time travel story is definitely not to inform the audience that every subsequent installment of Star Trek will occur in an altered timeline.
In fact, it's just the opposite. The entire reason the characters are so concerned with restoring the timeline is that they want to return to their lives in an unaltered timeline.