Couldn't you just Nuke a settlement when importing. Only select the first item (which I think is vanilla game added items).
"- Import original items (not built by the Player) By enabling the import of original items you will import any items that were originally linked to the settlement workshop but wasn’t built by the creator of the Blueprint. Another example would be Tato Plants and Melons at Abernathy Farm. Of course if the Blueprint doesn't contain such items this option is irrelevant."
Select only this option and enable nuke settlement. I'm not sure if this works. I'm guessing it would.
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"- Import original items (not built by the Player)
By enabling the import of original items you will import any items that were originally linked to the settlement workshop but wasn’t built by the creator of the Blueprint. Another example would be Tato Plants and Melons at Abernathy Farm. Of course if the Blueprint doesn't contain such items this option is irrelevant."
Select only this option and enable nuke settlement.
I'm not sure if this works. I'm guessing it would.