Yes, because whenever you visit the Chantry you can’t go five feet without stepping on an orphan - oh wait, that’s right, there’s like five people in the Chantry max at any one time. They either packed away the orphans in the basement or you’re grasping for reasons to justify a corrupt institution. Whatever helps you sleep, I guess.
Or there’s story/gameplay segregation. There are parts of the chantry Hawke can’t go into, and it is stated in game that the chantry helps orphans, including Fereldan ones, when nobody else will, to at least some extent.
ETA: What I mean is, you don’t need to erase the good the Chantry did to argue it was corrupt.