Not sure if this is anything or not.

You pasted the httpd-ssl.conf file.

The script output is referencing httpd.conf

I think it’s sending the challenge request via port 80 and that might be where you’re looking in the wrong place.

Is it the primary sex organs that determines sex? Or is it hormone levels? Or is it chromosomes?

Each of these are non binary and have outliers and exceptions. All three together play a role in determining what we think of as being sex.

It’s not binary, unless your looking at it with a grade school level understanding of biology.