Yeah, Leliana's struggle when it comes to her faith is more about how to reconcile her belief that the Maker is benevolent and loves all his creations, with how the Chant unintentionally portrays him as more as an neglectful, indifferent god who's prone to rage-quitting his creations for minor or trivial infractions, as well as how the Chantry likes to portray him as clearly favouring humans over all other races in Thedas.
Cassandra doesn't really have that struggle when it comes to her faith. She certainly questions the Maker at times, but she seems to be more willing to reconcile this with the belief that the Maker has an ineffable plan for everyone and there's a method to the madness, or that such struggles are meant as tests that one must overcome.
As for the human only issue, I think this game in particular is misleading about it. I like that Cass and Leliana want to open the Chantry to more people, but that was never the Chantry's fault in the first place. Now all of the sudden because Varric isn't religous, it's everyone else's fault? Dwarves never gave a **** about the Chantry. It's not the Chantry's fault. The Qunari don't give a ****. And it's not like there's a bunch of Tal Vashoth running around knocking on Chantry doors, begging for guidance.
The elf issue is more complicated. A lot of bitterness on both sides... the Chantry is only at fault for carrying on their grudge for so long.
This game makes it out like we're correcting some grave injustice against all of the races. It seems like it's written for noobs. If we play the other games, we know better.
edit: Damnit, I should have just used the duplicate space above this post... Oh well.