I ran into this problem because I had multiple wildcard entries for the same ports. You can easily check this by executing apache2ctl -S
:
# apache2ctl -S
[Wed Oct 22 18:02:18 2014] [warn] _default_ VirtualHost overlap on port 30000, the first has precedence
[Wed Oct 22 18:02:18 2014] [warn] _default_ VirtualHost overlap on port 20001, the first has precedence
VirtualHost configuration:
11.22.33.44:80 is a NameVirtualHost
default server xxx.com (/etc/apache2/sites-enabled/xxx.com.conf:1)
port 80 namevhost xxx.com (/etc/apache2/sites-enabled/xxx.com.conf:1)
[...]
11.22.33.44:443 is a NameVirtualHost
default server yyy.com (/etc/apache2/sites-enabled/yyy.com.conf:37)
port 443 namevhost yyy.com (/etc/apache2/sites-enabled/yyy.com.conf:37)
wildcard NameVirtualHosts and _default_ servers:
*:80 hostname.com (/etc/apache2/sites-enabled/000-default:1)
*:20001 hostname.com (/etc/apache2/sites-enabled/000-default:33)
*:30000 hostname.com (/etc/apache2/sites-enabled/000-default:57)
_default_:443 hostname.com (/etc/apache2/sites-enabled/default-ssl:2)
*:20001 hostname.com (/etc/apache2/sites-enabled/default-ssl:163)
*:30000 hostname.com (/etc/apache2/sites-enabled/default-ssl:178)
Syntax OK
Notice how at the beginning of the output are a couple of warning lines. These will indicate which ports are creating the problems (however you probably already knew that).
Next, look at the end of the output and you can see exactly which files and lines the virtualhosts are defined that are creating the problem. In the above example, port 20001 is assigned both in /etc/apache2/sites-enabled/000-default
on line 33 and /etc/apache2/sites-enabled/default-ssl
on line 163. Likewise *:30000
is listed in 2 places. The solution (in my case) was simply to delete one of the entries.