The presence of another character bearing the same name earlier in the series doesn't mean the Biblical reference still wasn't intended. There are so many references to mythology throughout the game that the idea that a major character whose name is almost identical to that of a Biblical character wasn't intended to be a reference to that character, especially when he betrays someone who's like a brother to him, is pretty much nil. I mean, even stuff like the villain (Golubaeser, if it is properly translated, a reference to a poisonous fly of legend) and the Four Fiends (all of whom are taken from Dante's Inferno) come from mythology. So having a main character in such a game not named at least in part after a Biblical character is pretty unthinkable.