I know how to use Batch editor to apply to *one* box, but not *some boxes* (and ignore others).
If you want batch editor to work for some boxes (so more than one),
open another same generation save, and import the boxes (that you wanted modified) into that save, then run batch editor there.
Alternatively, run the edits box by box.
Example, to remove mons in Box 1:
=Box=1
.Species=0