All the munge does is put everything into one file anyway, but it expects them to be prepared a specific way so it knows how to index them when it squishes them together.
Everything I have read about animations indicates SWBF relies heavily on the actual names of the animation msh files. If the filename convention (banks and specific names and such) breaks down or isn't followed, the animations just don't get used, even if the munger passes them with no error.
To get all-in-one animation files, we could start digging up the format of the munged files
