Problem solved!
Handy tip from @
ManiacJoe - re-checking the file path for several of the MP3s through the media player app.
In this case, almost all the subfolders (by artist) had been copied wholesale and dropped inside one particular artist's folder. But all the structure had been kept so whilst
SD\music\aerosmith\toys in the attic
was completely empty but the path still existed
SD\music\crossfade\aerosmith\toys in the attic
had all the files in there!
Bizarre occurrence, no idea how or why the device or an app has managed to copy everything into that folder.
I'm sure someone will say user error - but i'm not sure how i would even accomplish that and still leave the original root folders in place - drag and drop would have just copied etc...
Anyway, all back in place and mystery solved - thanks for all the tips!