Think the creator of Trigun was catholic... I haven't seen the series in a long time but I seem to remember some Christian elements at the end. Very subtle but more so than I ever saw in any other anime.
Evangelion is NOT Christian at all... but I'm sure that's been addressed already. It just uses Christian stuff to make it seem more cool and mysterious... kind of like how we add japanese mysticism to a lot of american stuff.
Another anime that's not Christian at all but you could kind of draw up parallels was Wolf's Rain... Wolves looking for a paradise most no longer believe exist but wolves are called to it anyway even though many others think they're nuts... It wasn't intended to be sure but I kind of paralleled the wolves journey to a Christian's. Or a seeking Christian at the very least.