Pet peeve: an AP course will show up on your transcript so every college a kid applies to will see it. Giving extra GPA points is ridiculous and nonsensical - kids don’t get more than a 4 for an A+, so why should they get more for the kind of class?
That having been said, it looks like the school really screwed the pooch in how they treated the kids from the historically black school.
If you are taking an AP course the only thing that matters is the grade on the exam itself not the class grade.