> other than the initial hassle of switching to a new system
Is like saying: "people can move overseas with minimal cost (other than shitloads of migration bureaucracy, frequent flying to meet family, put their entire furniture on top of a cargo ship)
More like trying to remove an invasive cancer that has spread to all parts of your body whilst you're still needing to move around, be productive and live your life.
I'd say that for many large companies, Jira is better than the alterntive of having multiple systems that need to be kept in sync. Steering any large company will be a mess, no software will ever make that easy. And any software designed to be that flexible will end up being slow eventually.