Sure, Eamon's an asshole. There's also 0 indication of Orlesian collaboration on his behalf.
Except, to the populace of Ferelden, they very explicitly in canon suspect Isolde of being an Orlesian spy. Eamon, by marrying her right after the war, threw up a lot of warning flags.
Eamon, and a lot of the nobility, look very much down upon Anora being the Queen, given her peasant origins. Indeed, the elevation of Loghain, despite his heroic status, being elevated to Teyrn is also very annoying to them.
Furthermore, there is absolutely collaboration between Cailan and Orlais, and Eamon is a die-hard supporter of Cailan. If push came to shove, Eamon would fall in line behind him to support him.
There are a lot of openings there for any fanfic author to draw connections. However, I don't actually recall any specific collaboration in my reread of Victory at Ostagar, so I'm not sure why you bring that up.
So does... pretty much every large medieval organization. As for lyrium... it's explicitly stated that that's how Templars get their abilities(or at least, get them as strong as they are). There's some amount of gameplay fudging here, but that's firmly canon.
List of things the Chantry does that is beyond morally reprehensible in DA canon:
Controls the populace via religion.
Controls international politics via religion.
Leads Exalted Marches on non-humans and non-Andrasteans.
Forcibly addicts Templars to lyrium (note that mages don't get addicted).
Monopolizes the Lyrium trade to disadvantage dwarves and to prevent its availability to any uncontrolled mages.
Imprisons and brainwashes innocents.
Executes innocents for perceived crimes.
Physically and psychologically tortures innocents for perceived crimes.
Commits genocide.
Destroys the sanity of innocents in order to have free labor.
Practices blood magic (mostly noted here for the hypocrisy).
They perform a whole lot more atrocities than any other single institution in canon, except possibly Tevinter and the Qunari.
Except mages in Thedas are really fucking terrifying. The moment you take away that sort of control, you get abominations. A mage gets mugged? Possible abomination. A mage has a bad breakup? Possible abomination.
Normal people, when they have a shitty day, cry for a bit, maybe punch a pillow, or whatever.
A mage might turn into a murdermonster that can casually slaughter towns.
The existence of Tevinter pretty much contradicts your points here. Also any non-Chantry-controlled mages. Also also Grey Warden mages. Also also also the events of Inquisition if you side with the mages.
Time and time again we are shown, in canon, that with sufficient training, mages will be able to safeguard themselves from becoming abominations. Redcliffe happens because a child mage didn't receive that training. The Ferelden Circle happens as a rebellion attempt against perceived slavery and oppression that goes wildly out of hand. These are pretty much worst-case scenarios, and we know of exactly two of them (haven't played DA2 or finished DA: I though, so there's that). Most of the time, if abominations are around, they're somehow confined to a building or they are too busy drinking in the non-Fade around them.
The efforts of the Chantry are demonstrably unnecessary to prevent horrible things from happening (see Tevinter especially for this).
Tell me, then. What are her character traits? She's... brave, I guess? She... uhh...
Gimme a bit to think of some more because nothing's coming to mind.
Brave, fair, just, honorable, dedicated, loyal, merciful, passionate, lustful, compassionate, charismatic, intelligent, commanding, vain, obsessive.
Quite surprised you don't recognize any of that, considering a lot of characters remark on it frequently, especially merciful, commanding, and obsessive (though the obsessive is often taken as dedicated until some of the very last chapters).
Yeah, no.
I felt absolutely nothing when Cullen died, nor when Brosca learned of that, or... anything.
I have no idea who Cullen even was, as a character, beyond "Templar".
To be fair, Cullen as a character by that point in the story was DA: O Cullen, who hardly receives any characterization. Also, given that, in the story, he is provided to the Wardens as a blarant Templar spy, and given Anders, Tara, and Morrigan, Cullen is understandably left by the wayside. He matures as a character in that he comes to understand that mages are people, that the Chantry isn't always just or right just because they say they are, and so he starts to form his own ideas and opinions, rather than being a tool. He dies long before he gets to the point where we see him, for example, in DA: I. That that's the exact way he grows as a character in canon, despite the story being written prior to DA: I, is actually fairly impressive.
Something very similarly happens to Leliana due to her allegiance to the Chantry (Sacred Ashes debacle) and due to her Orlesian origins (untrusted by Loghain).