While mutants have existed throughout history, they were fairly rare in any given time period. It wasn't until the 20th century that the X-Gene started to manifest with increasing frequency. Though still initially uncommon in the early decades, by the 1980s mutants had become a public presence in most parts of the world. Unsurprisingly, the existence of people with obvious mutations and/or potentially dangerous powers sparked both fear and hatred in some of those who were not mutants themselves. Equally unsurprisingly, that fear and hatred sparked fear and hatred in turn. And thus was the Brotherhood of Evil Mutants born, deciding to give the humans a real reason to hate and fear them.

Over the years, it's had many names and different factions have split off, some more extreme, some less so, and led by different people. The first were the Brotherhood of Evil Mutants. Then they dropped the 'Evil' to become just the Brotherhood of Mutants. It's better PR when recruiting as most of them truly don't see themselves as evil but as freedom fighters. There's also been the Sisterhood of Mutants and the Acolytes.

The most recent version was just known as The Brotherhood and its membership swelled in the United States as Registration began to take hold in the country. While the law eventually targeted all those with powers, it did single out mutants to start with and Brotherhood activity was at its height from 2008 to 2016.

The repeal of Registration in 2017 took some of the wind out of the Brotherhood's sails and membership plummeted as many of its newest members just wanted to live their lives in peace, leaving mostly the die hard mutant supremacists to continue the fight. With the help of a third party, there was a negotiation between the Brotherhood and the United States government where the Brotherhood would be completely disbanded and pay a hefty fine. In return, its leadership would serve some nominal jail time (except for those who could be proven to have committed murder) and the rank and file members would be granted amnesty, allowing them to not have to look over their shoulders for the rest of their lives waiting to be arrested.

At present, while there are still mutants waging war against humanity, the Brotherhood does not exist in the United States in any organized form.

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