Well that depends on how you arrange your addons folder in P3D
I'm not a fan of every plane being completely separate so I have mine arranged by developer/publisher, that way the Sim only has to call on one add-on.xml per dev/pub instead of one for every single plane.
e.g. for GAS I have "E:\Prepar3D v5 Add-ons\Golden Age Simulations" with Effects, Gauges and SimObjects in that.
I also don't install directly where possible, I install to a temp folder and copy across.
If I delete a plane I'm not too fused about orphaned effect or gauge files, If a plane doesn't call on them the Sim doesn't know there there so they wont have any affect on loading or memory usage.
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