ask someone to send you all the files you need (ba0, ba2 and bsc); open the broken ba0 and ba2 as png and save the actual mod, so you don't have to redo it; replace the broken files with the clean files; try again, and this time only work on ba0 and ba2 files.
also remember that full transparency isnt supported, so if you had a transparent part in mind set its opacity to extremely low, so it's barely noticeable.