The fogbugz setup script only makes one change to your main apache's httpd.conf file. It adds and "include" statement at the end to import the fogbugz-redirect.conf file in /opt/fogbugz/conf. To change to having FogBugz at the root of your webserver, you need to put the redirect in your main apache config file in a VirtualHost.
In your main apache httpd.conf,
Remove or comment out the line that FogBugz added which includes fogbugz-redirect.conf
Add a virtual host with the proxypass directives
<VirtualHost *:80>
ServerAdmin youradmin@yoursite.com
ServerName oursite.com
ServerAlias www.adambox.oursite.com
ProxyPass / http://localhost:7066/fogbugz/
ProxyPassReverse / http://localhost:7066/fogbugz/
#Default proxy timeout of 21 minutes, 1 minute longer than the longest FogBugz page timeout
ProxyTimeout 1260
</VirtualHost>
You can also try this more thorough version if you use SSL:
<VirtualHost *:80>
ServerAdmin admin@example.com
ServerName fogbugz.example.com
ServerAlias fogbugz
ServerSignature Off
LogLevel warn
ErrorLog /var/log/apache2/fogbugz-error.log
CustomLog /var/log/apache2/fogbugz-access.log combined
# Change to root --#
RedirectMatch /$ http://fogbugz/
ProxyPreserveHost On
ProxyPass / http://localhost:7066/
ProxyPassReverse / http://localhost:7066/
<Proxy http://localhost:7066/* >
Order deny,allow
Allow from all
</Proxy>
ProxyTimeout 1260
</VirtualHost>
<VirtualHost *:443>
SSLEngine On
SSLCertificateFile /etc/apache2/ssl/apache.pem
ServerAdmin admin@example.com
ServerName fogbugz.exampl.ecom
ServerAlias fogbugz
ServerSignature Off
LogLevel warn
ErrorLog /var/log/apache2/fogbugz-error.log
CustomLog /var/log/apache2/fogbugz-access.log combined
#-- Change to root --#
ProxyPreserveHost On
ProxyPass / http://localhost:7066/
ProxyPassReverse / http://localhost:7066/
<Proxy http://localhost:7066/* >
Order deny,allow
Allow from all
</Proxy>
ProxyTimeout 1260