Not sure the chambers are of different sizes but even if they were with sealed there is no much difference in performance for normal to larger than normal internal volumes, say 1 cubic feet and 1.2 cubic feet will sound largely the same.
If those subs are the lanzar st max12s those may play better in ported box rather than sealed.
To answer your question it's better to cut a circle in the dividers rather than take them out to preserve the box strength.