Inside "flagged" areas (aka bases) there are no boxes, nor resource nodes. They only are in those shared areas.
As for my suggestion not being very thought out, all complains so far are untrue ("problems at base, resource nodes theft"). Still waiting for valued critic rather than 'it's not very thought out' (it is, believe me), 'it's changing the game to what you want' (reminds me of the Obsidian boards XP-discussion in regards to Project Eternity. I want the best for PvE and PvP, not myself. And the suggestion is based around that) or just 'it sucks' without any argumentation...