Is your computer's locale set to Japanese? I believe you need to d that or run it through AppLocale.
They said they already did both of those.
There's always the rare chance that running the game as an administrator could fix it. Unlikely, but worth a shot.
I'm guessing either the patched version is glitchy, or that with the patches, your system doesn't seem to like the game anymore. Maybe they changed some rendering code and your GPU doesn't support it. How old is your system? (laptop / desktop?)
(I'm unable to test with this game as my computer is too old to play it correctly so I have no idea)