There's pretty conclusive evidence that a lot of people think 'people outside their in-group' give off creepy vibes, yes. It's not a black vs. non-black thing, it's literally that being together with 'familiar' groups of people makes you feel more comfortable than otherwise. And while this can be a source of unwanted 'noise', it can also be quite separate from the more specific feeling about a particular person's attitude. I'm pretty sure that if we asked OP about black males other than this guy, he/she would tell us that no, as a rule, they did not make him/her feel uncomfortable the way he did.

(After all, working at a firm like Google, in this day and age, involves being exposed to people of many diverse backgrounds and being willing to engage with them as peers regardless of how one might initially feel about their group identity. That's a pretty good antidote to ingroup biases!)

I did mention disdain as a possibility because that's perhaps the most common source of those "inexplicable" creeper vibes, and also because OP themselves seems to be drawing a contrast between these and the "friendly" attitude of the person they worked with.