If a beacon gets broken, it should respawn with church and hegemony fleets patrolling around it.
What goodies would you give to the player of breaking them?
Nothing?
It’s for intel screen clean up.
Or make beacons intelligent enough to degrade itself.
For example, instead of just warning, make them serve as some kind of bounty on the system.
If you destroy the station in a high danger, the beacon drops to medium danger and award you with a pre-determined amount of cash, for Hegemony thanking you for your hard work keeping the sector safe.