For me, it is not the save-scumming (although doing that to pick skills is annoying too), but that the player needs the officers with skills matched to the ship, and if the fleet changes much, those officers probably become obsolete, and they must be replaced, which will burn SP without refund if those officers sent to the chopping block had elite skills you paid for. Then player needs to grind more to level up the new officers.
In old releases, I freely changed ships and weapons, although ships and weapons were rarer and more easily lost back then. Now, I cannot do that because officers are usually needed in the fleet to beat harder fights. At this point, I just try to build fleets that do not need human officers. While I like to try Support Doctrine simply to be free from human officers, that is not an option when my skills do not include Leadership 5. (My builds have no Leadership at all.)