The organization began allowing gay youth in 2013 and ended a blanket ban on gay adult leaders in 2015. In 2017, it made the historic announcement that girls would be accepted as Cub Scouts as of 2018 and into the flagship Boy Scout program — renamed Scouts BSA — in 2019.
They did the same for LGBT until recently.
Being a private organization does not grant you an unlimited right to discriminate, no matter how much the right likes to pretend it does. That’s why anti-discrimination laws exist. There’s loopholes orgs have tried to use, and protections vary by state, but just being a “private organization” doesn’t mean “do whatever prejudicial thing you want.”
Like I said, I don’t see this current iteration of the org fighting atheists in court.