Ahh, yeah, that's because the editor assumes the CRYSTAL_BOMBER to be the last vanilla enemy ship (which happens to be true 99% of the time), and marks any ships that it finds after that as "Other"
And thank you for your help, those bugs are really weird, I can't seem to be able to reproduce them -- guess I'm doing something wrong.
Also, speaking of bugs, I just found the elusive weapon/drone count bug that people have been complaining about for some time... Guess I'll go all the way and automate the weapon count, it's long overdue anyway.