I had a blast playing Rogue, especially how disappointed I was Unity. Rogue gameplay wise, was able to capture the awesome Ship sailing mechanics from Black Flag and was able to collaborate with the Frontier wildlife of AC3, and improve to have a much better New York than AC3 did.

Story wise? I can actually understand gripes with the story. The overall story is "Assassin's can be bad! And Templars are actually pretty cool!" in a very forward fashion. While the Kenway Trilogy does a good job making the Assassins-Templar feud more gray as opposed to the "black and white" picture from the Ezio Trilogy, Rogue pretty much made it "white and black" instead. The sequence of events had Shay understandably rash but the whole execution of it made both Shay and the Assassins look like stubborn hard-heads, dropping him like a bad habit easily. And conveniently all the Templars are actually really nice in this game, and Shay was willing to put aside all the Assassin teachings and embraced the Templar way from the start, and literally everything on their agenda had no horrible consequences and only had positive results. And Haytham was misused, Haytham made a grand entrance but mostly appeared towards the end half, and he didn't have much interaction than teased before release, to be honest.

The way I would have done it, is emphasize how gray everything is. Shay should understand that perhaps the Assassin way isn't easy but not entirely at fault, that it's more Achilles's cell that had issues, and while the Templars are not entirely evil people with members like Munro, they'll still climb over people for the sake of control. Shay shouldn't have embraced the Order so easily, but maybe started off with it as a necessary evil to right the wrongs the Assassins. Maybe have more interactions with Templars like Charles Lee, who's more dispicable when he's had a position of power and isn't kissing up to superiors, just to balance off the nicety of Templars.