The Destiny plan was also absolutely stupid. Being genetically determined how you live your life takes away the point of being human. Freedom, and all that.
The Final Special Plus saved what little dignity Destiny had. The regular ending otherwise was a horrible montage of Kira once again defeating both armies without even a scratch on his paint (and randomly turning into regular Freedom). The ending still doesn't make sense. Why is Kira of all people confronting Durandal? He's a soldier, not a political mastermind like Lacus, or have personal ties like Athrun. In fact, Shinn should've taken the Impulse and faced Kira one last time if he was so determined.
You want to know why Shinn should show remorse? He was part of the reason Berlin's in a rubble right now. Yeah, Neo went back on his word but Shinn was the one that knocked out security, ran away for personal uses to deal with the enemy, and then thinking Stella's some innocent **** while thousanRAB are dying around the battlefield because they recreated the Athrun/Cagalli scene in the cave, sans worRAB. (they require IQ)
Without regret to his actions, he became unsympathetic and thus cheered when he got owned (Seriously, out-kick the guy with laser shins?)
Uh, Setsuna never left Celestial Being. And what do you mean "Modern?" The only series in 2000 was SEED and 00. Kira's the only one off the top of my head that went against his starting faction in the middle of the series.
Domon didn't go against Japan, just a few bad seeRAB and the Devil Gundam.
Kou was still part of the Federation, and the side that was against him was the eventual Titans.
Tomino-UC, they all stuck with their factions. Loran was always with the earth side on priority, followed by only fighting Turn X faction later. Wing boys were always independent. GX squad stuck together. So I have no idea what you're talking about.