@WonderWino That is Starfleet's reason for having Sisko there and frankly Bajor is more or less in the Federation by the finale in all but name anyways. The Prophets want Sisko there to protect Bajor and the Bajorans. They don't really give a shit beyond that and only begrudgingly (and with a price) help him when he is about to commit suicide fighting the Dominion fleet.
A fight that would have almost certainly been followed up by the near certain conquest of the alpha quadrant, meaning the prophets don't actually care about the fate of the rest of the galaxy or who rules what as long as Bajor and the Bajorans are protected.