Permalinks not obeying hostname rewrite

Hi,

I’m running WP 4.2.2 on AWS using a Bitnami WP image. I added rewrites to conf/httpd-vhosts.conf (contains <VirtualHost>) to rewrite any host that doesn’t match my preferred hostname (find example of vhosts below.) This change works fine for everything except permalinks. Just incase my explanation isn’t clear, here is an example;

https://aws-hostname.com/wordpress redirects to
https://www.website.com/wordpress

https://aws-hostname.com/wordpress/permalink does not redirect at all.

I’ve made sure that the hostname is correct in wp-config.php, checked the permalink settings in the WP dashboard to confirm it does display the proper hostname and restarted the server just incase some change was not taking effect. I’ve included a copy of my htaccess config below. I’m sure I’m missing something here, but I can’t seem to figure out what it is. Any ideas would be appreciated. Thanks.

vhosts config:

<VirtualHost *:80>
  ServerName www.website.com
  DocumentRoot "/opt/bitnami/apps/wordpress/htdocs"
  Include "/opt/bitnami/apps/wordpress/conf/httpd-app.conf"
  RewriteEngine On
  RewriteCond %{HTTP_HOST} !^www.website.com$
  RewriteCond %{HTTP_HOST} !^(localhost|127.0.0.1)
  RewriteRule ^(.*)$ https://www.website.com$1 [R=permanent,L]
</VirtualHost>

<VirtualHost *:443>
  ServerName www.website.com
  DocumentRoot "/opt/bitnami/apps/wordpress/htdocs"
  RewriteEngine On
  RewriteCond %{HTTP_HOST} !^www.totalboatshow.com$
  RewriteCond %{HTTP_HOST} !^(localhost|127.0.0.1)
  RewriteRule ^(.*)$ https://www.totalboatshow.com$1 [R=permanent,L]
  SSLEngine on
  SSLCertificateFile "/opt/bitnami/apps/wordpress/conf/certs/server.crt"
  SSLCertificateKeyFile "/opt/bitnami/apps/wordpress/conf/certs/server.key"
  Include "/opt/bitnami/apps/wordpress/conf/httpd-app.conf"
</VirtualHost>

htaccess / <Directory>:

<Directory "/opt/bitnami/apps/wordpress/htdocs">
    Options +MultiViews +FollowSymLinks
    AllowOverride None
    <IfVersion < 2.3 >
    Order allow,deny
    Allow from all
    </IfVersion>
    <IfVersion >= 2.3>
    Require all granted
    </IfVersion>
    RewriteEngine On
    RewriteBase /
    RewriteRule ^index\.php$ - [L]
    RewriteCond %{REQUEST_FILENAME} !-f
    RewriteCond %{REQUEST_FILENAME} !-d
    RewriteRule . /wordpress/index.php [L]
</Directory>