Back to the headcanon discussion, here's one that another thread made me remember.
Ignoring SNW Tomorrowx3, The Eugenics Wars (emphasis on the plural) were not a single conflict. They were... multiple wars. It's in the name.
The Khan-related part happened in the 90's. The genetic supermen took over largely in Asia, perhaps through the Middle East, built their empires and were ultimately beaten back. Augments don't just disappear, but it becomes something a bit more on the down low and much more regulated.
In the following decades, there could be something like augment witch hunts, where an enemy of someone may accuse the other of being augmented, and while not necessarily illegal (in fact alot of wealthy people were "designer babies"), it's frowned upon by the general populace.
It eventually comes to a head by the 2030's, where the Second American Civil War is triggered by a new American President being proven to be augmented, and beyond just that, actually born of the embryos of the 1st Generation augments, quite literally one of the "genetic supermen". This leads to an all out panic, many believing the US had been taken over by waiting augment forces. They aren't entirely incorrect, this man was born in the 80's while the Augments were building their empires and absolutely intended to be one of them... but the project in the US and most of the western world fell apart, leaving those augments born to just exist. The President himself was never aware of the plans, but he did know his heritage.
There are demands for him to step down, but he refuses. Riots break out, and militia groups start making moves against government assets. Several states band together and demand the Presidents resignation, but he digs and refuses. There is a political split, the Presidents party stands behind him and before long, there is open warfare with several states declaring that they do not recongize the authority of the President.
As the SACW goes on, the destabilization of the US reverberates throughout the world. It would partially prove some of the American secessionists right... with the world in turmoil, augments in waiting take the opportunity to strike, having been fairly recently bolstered by the likes of Adam Soong rejoining the project, quickly growing cloned augment forces and equipping them with advanced technology.
The SACW spurred into a new Eugenics War. Over several years, normal human forces were finally able to once again defeat their augment enemies, who had once again taken to fighting amongst each other. With the world having descended into a massive battlefield and nations across the globe weakened and destabilized, new nations and alliances quickly formed as humans began to reclaim their governments. Unfortunately, this didn't end well, as it inevitably ended up in power grabs by nefarious forces.
With the augments once again defeated, the shattered nations of the world were now scrambling to claim what was left... which only led to further war, and with forces so depleted from the Eugenics War, the literal nuclear option was taken. WW3 ended with a massive nuclear exchange.
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