debian/apache2.install contains:

debian/bash_completion/a2enmod                  
/usr/share/bash-completion/completions/
debian/config-dir/*                             /etc/apache2
debian/a2enmod                                  /usr/sbin
...

We need to backport the changes for apache2.install list config-dir
contents more explicitly:

debian/config-dir/*-available                   /etc/apache2
debian/config-dir/*.conf                        /etc/apache2
debian/config-dir/envvars                       /etc/apache2
debian/config-dir/magic                         /etc/apache2

This covers all the items in Xenial's config-dir that we want, i.e.:

$ ls config-dir/
apache2.conf.in  conf-available/  envvars  magic  mods-available/  ports.conf  
sites-available/

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https://bugs.launchpad.net/bugs/1899611

Title:
  Purpose unclear of unknown file /etc/apache2/apache2.conf.in

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