Here's an idea.
Eliminate ALL Uranium targets from the map and only use the SubSector Base for Uranium. One hit fills your uranium quota.
Eliminate ALL Base Part targets from the map and only use the SubSector Base for Base Parts, again, One hit fills your base parts quota.
Eliminate all Titanium targets from the map and ADD Titanium to a SubSector Base wing to get all the titanium quota for your base.
Eliminate ALL Cargos from the map and ADD a Resource wing to the SubSector Base to fill up all your resource quota for your base.
There are 2 empty wings on the SubSector Bases already. This would eliminate all duplicate targets and clean up the map considerably.
Eliminate alliance points from Cargos. Make it so that hitting ANY base would give you alliance points whether they are in an alliance or not. As it is now, non alliance bases rarely get hit. This would add the PvP element that obviously Kix is looking for. If Kix wants they could add all non alliance bases into a Kixeye Alliance.
Make all bases 1 - 99 at +/- 5 or 10 levels to attack
Make all bases over level 100 open to anyone to attack above level 99