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Really, most Megastructures should increase the amount of Empire Size one is generating instead of having a hard cap. Surely something surrounding a star requires maintenance and logistics personnel rivalling a small continent, right? Maybe somewhere between a Colony and a Branch Office? Downside could be adding megastructure upkeep or reducing build speed with Empire Size, to represent how hard it is to get all the resources across your empire to the construction site.
 
the reason why the limit of 1 is ridicupous is because you could release vassal and let him build it. having a limit just put tedious micro in the game