Some of the scrolls collected from the Brotherhood corpses say that they died one way (such as by drowning), but the corpse may have fatal injuries with arrows or swords protruding from them, contrary to what the scrolls say.
Improper punctuation in in-game text.
Spelling mistakes in in-game text.
In-game information says that the Spirit of Schneider will not rest until his mission is fulfilled, yet he does rest if the Player runs out of M.P.
In some underwater areas, steam can be seen flowing out of vents. Steam needs air to be present and cannot form in water.