Best case scenario: Anora's role will depend entirely on how you manipulated her fate in Origins. I hope Inquisition has at least a Monarch of Ferelden quest or cameo. However, if that quest/cameo gets made, I think it's fair to have an Anora version. It might even be fair to have an Alistair/Anora version, and we can find out if she ever got to the point where she could keep from snatching her hand away.
If Alistair is King, it might be interesting to find out what he finally did with Anora. Will we find her in exile? (In Orlais? That could be hysterical.) Would she still be locked up in a Tower hoping Alistair dies without an heir, since we know he almost certainly will eventually? Will we learn of her eventual execution and the political consequences of same? (That might be more of a codex entry.)
I'm afraid I don't agree that the developers "favoritism" towards Anora is at all unfair. Alistair was a companion, whom the Warden was required to have in his/her party through at least two complete quests. Anora was an NPC whose primary contribution to the storyline was to play damsel in distress and cry for help before embarking on a couple of self-serving political headgames. I actually think they didn't write her as well as they could have; if they wanted the audience to develop the same level of bond as they do for Alistair, they should have at least given her a sword and had her help you in the fight for her own rescue. She seems to have been written primarily for the purpose of extending the number of possible endings to the story, and to make the Loghain execution dilemma more interesting. (After all, it's kind of a boring game if Alistair the King is the ONLY possible result.) Every single quest in the game has more than one possible result. You can save the Circle or annul it. You can choose Bhelen or Harrowmont. You can side with the elves or the werewolves, or have Zathrian and the Lady sacrifice themselves to save both. In each of these quests, there's a solution that the developers very clearly prefer, but there's also an Option B, and the game's replay value skyrockets immensely because of all those "less desirable" but oh-so-intriguing Option Bs.
You can go with King Alistair, which seems to be Gaider's very clear preference, or you can choose Option B. Anora, and the game did a pretty fair job of suggesting why this might be a good idea. (For it to have been an excellent job, I would have had to watch her be the excellent administrator that we were told she was. She spent most of the actual game wringing her hands and fretting while her dad ruined everything.)
Now, if Fiona is a character in Inquisition, which I FERVENTLY hope is the case, the situation is going to be even more complicated. I firmly believe Fiona was Alistair's real mother, and one of my hopes for Inquisition is that Fiona and Alistair finally become at least aware of each other. However, there's not much of a role Anora could play in a scenario like that, and so if she's queen we might just lose a scene or a quest, unless they develop something that allows her to reference Loghain somehow.
It won't matter much to me. Anora does not rule in my Ferelden. I am interested in knowing what finally happened to her, but she's not anything like as important to me as Alistair is because he actually helped me achieve my Warden's goals and Anora did almost nothing useful the entire game.