Somehow I don't think their gonna go that deep into the "aesthetics".
Yep. They have a different vision for Trek, that's fine.
Though the 60s aesthetics are canon for the Prime Universe shows. Trials and Tribblelations, one of Trek's more memorable eps, references them in detail, even in the dialogue.
I suspect as per "Calypso" there will be a time jump involved at some point down the line... she may be "in transit" during all later Trek shows.
That would make the most sense.