Amazing work. I had no idea this game even existed and it's truly one of those hidden gems you can't help but love. Thanks a lot!
I've spotted a couple of bugs probably unrelated to the translation:
1) When naming the Hero and Heroine, you can press L or R to change the character sets (which would originally be kana symbols and western characters). The routine to cycle through the sets seems to be slightly messed up: if you go to the left of the starting set, you'll be using the last, but if you go left again you'll remain in that set. The game remembers how "far left" you've gone, though, if you press L multiple times, you'll have to press R the same number of times to get back to the normal cycle. This works both ways. It's a trivial bug since 3 of the 4 character sets are the same, but it's there.
2) One of the things you're told by the Senju in the tutorial is that you can summon any Senju you named "by pressing Select". It took me a long while to guess that that's meant for when you're naming a newly summoned Senju. I kept giving names to every new Senju I summoned until I reached a point in which summoning a new one would cause a room to become corrupted: a gate became a wall (it still received Ki but didn't send through it). The game froze after the enemy scene past the recount time. Apparently, giving too many names to one type of Senju is bad (this happened with the Rat btw).
3) Related to the previous bug. I cycled through the given names of the conflictive (Rat) Senju pressing Select. They stopped changing after showing 32 names (it went through the list a couple of times, I probably have 14 - 15 different names for Rat Senjus). If I chose the name that remained, the same corruption happened. There didn't seem to be any problem with the Dragon or the Bird.
I used ZSNES 1.51 for this. Here's a savestate just before summoning the Senju:https://dl.dropboxusercontent.com/u/144016034/Chaos%20Seed%20-%20Fengshui%20Chronicles%20%5BNTSC-JAP%5D%28ENG%29.z14
The room that becomes corrupted is a small storage room (Earth element) in the lower part of the map (two rooms below where the Hero is).