same issue. i have it when running only carbonite as well as running with all my other addons. it also seems to replace many hotbar ad other graphics with plain blackness.
Right click a non icon area of the map, select Transparency and move the "Unexplored Transparency" slider around. They should go from black at 0 to barely visible at .9. .35 is the default.
Carbonite does not replace other game graphics. It loads the normal game map graphics and shows them on the Carbonite map.
If various graphics are black, then you may have problems with graph driver or game graphic settings. I would reboot and test first before making other changes.