It looks to me like it's two different apaches. One was at /usr/bin/httpd and the other at /usr/sbin/httpd. Try manually starting the "sbin" one and see if the output of httpd -V is the same as when it starts up through the rc script.
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It looks to me like it's two different apaches. One was at /usr/bin/httpd and the other at /usr/sbin/httpd. Try manually starting the "sbin" one and see if the output of httpd -V is the same as when it starts up through the rc script.