You're letting humans off the hook. How many people of all ethnic backgrounds were killed in WW2? How many Blacks were in Hiroshima or in the Polish ghetto? What about the North American genocide and ethnic cleansing? How many Blacks did Mao kill? Pol Pot? North Korea is one big prison colony. When the Turks wiped out millions of Armenians, God must have been displeased that there were so few Blacks.
It wasn't God who enslaved Blacks in North America. It was white Europeans, who were gleeful that they could use skin color to easily round up slaves and chase them down if they escaped by simply seeking out their skin color once they were in North America. When an employer refuses to hire you because of your skin color, that's not God, it's a stupid human trick. When a bunch of dumb ass white guys march for Trump in goofy red hats and shouting out slogans about their purposefully incorrect interpretations of the religion that they've defaced, it isn't God doing it. It's dumb ass white boys.
It is humans who do horrible things to each other. It is they who should be held accountable. I can understand people dislikiing God for rolling the dice and giving humans free will, but he/she would be the last to consider race a topic worth talking about.
The first humans were Black, and migrated to northern climes, which affected their melanin. That doesn't make humans different as a people in any way, shape, manner, or form. Eventually, all the African descendants who are moving to Paris and London will have lighter skin tone, and all the Northern Europeans who moved to South Africa will have darker skin tone.
Jesus was probably darker skinned, too, compared to the commonly shown white skin tone. He was Aramean. There are some researchers who suggest he had the skin tone of Anwar Sadat.
Ultimately, it shouldn't matter. I understand atheism, but imaginiing God as a racist is a stretch. For one thing, it acknowledges God exists. For another, it presumes a God who takes sides.
Fiinally, it's worth notiing that Black interpretations of the Gospel are much cleaner and truer to the original teachings of forgiveness than white ones. And what on this planet is more glorious than seeing a bunch of Black women in their hats at a Sunday baptist mass?