[themoonisachees]

I get what you're saying, but at the same time that is exactly what the author is trying to do, just that they are doing it in their own way, which just so happens to feel adversarial to the manager.

There is no right or wrong here. Asking the engineer to "think logically" in terms of how what they're saying might be interpreted is stupid. They are autistic, and you cannot reasonably expect them to do the exact thing autism prevents them from doing.

Asking the manager to try to understand is probably more efficient, but the manager might be geared to think the engineer is adversarial already, possibly because of demeanor, or past experiences getting similarly confused. In this case the manager is probably more able to reason logically that their counterpart is autistic and is probably genuinely asking, but that is not a default, and probably requires some diversity training.