Yeah, that would be a good idea, so there aren't these random tubes in the middle of the map and no base connected to them.
Also, I plan on making it possible to export / import unit definitions from other maps or data files, as well as having a 'layer' system so you can export chunks of code in 'stages'; that is, you can create separate 'layers' for buildings, fight groups, etc, which make it easier to program fightgroups, mininggroups, etc by segmenting the unit code up like that.
Hope you catch my drift.
BTW Moogle on the 32 map issue: Any other information about the error? It could just be an out of memory issue. I'm not really sure how much memory the editor uses but I'm sure it's not very memory efficient.