This seems to work fine:

[EMAIL PROTECTED]:~$ sudo touch /var/www/mrtg/should_block_delete
[EMAIL PROTECTED]:~$ sudo apt-get remove --purge mrtg
Reading package lists... Done
Building dependency tree       
Reading state information... Done
The following packages will be REMOVED
  mrtg*
0 upgraded, 0 newly installed, 1 to remove and 5 not upgraded.
2 not fully installed or removed.
After this operation, 1339kB disk space will be freed.
Do you want to continue [Y/n]? y
(Reading database ... 137857 files and directories currently installed.)
Removing mrtg ...
Purging configuration files for mrtg ...
dpkg - warning: while removing mrtg, directory `/var/www/mrtg' not empty so not 
removed.
dpkg - warning: while removing mrtg, directory `/var/www' not empty so not 
removed.

** Attachment added: "mrtg_2.14.7-2ubuntu3.debdiff"
   http://launchpadlibrarian.net/12091859/mrtg_2.14.7-2ubuntu3.debdiff

** Changed in: mrtg (Ubuntu)
     Assignee: Iain Lane (laney) => (unassigned)
       Status: In Progress => Confirmed

-- 
Purging MRTG removes data from /var/www/mrtg
https://bugs.launchpad.net/bugs/162426
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