Sorry to those who want it, but this guy wins
in the most angriest way possible... And for making me laugh.
Well, I think the big difference between Evangelion and Xenosaga, is that EVA as a series is aware of what it is and it handles most of its narrative in a serviceable and interesting manner for its audience. Xeno on the other hand come off as a ball of decent concepts that couldn't be realized at their full potential.
That said, Xenogears was cool for what it was in its time.
EVA had even less of a clue as to what it was going for than Gears at its worst. For all the goofy and ridiculous ways Gears employed its religious symbolism, there was at least a vague understanding of the philosophy behind it, all EVA saw in its symbolism was the rule of cool. Also both ended with sequences of MCs sitting in a chair in a otherwise dark room, discussing things that may or may not have happened off screen. Either way though, Gears was more of a massive series of Giant Robot homages than anything else, whereas EVA was more of a subversion of the tropes of the genre.