--- /usr/bin/mysqld_multi.orig    2014-10-27 14:10:23.179114498 +0100
+++ /usr/bin/mysqld_multi    2014-10-27 14:11:08.767409171 +0100
@@ -487,6 +487,7 @@
                '/usr/my.cnf',
                ($ENV{MYSQL_HOME} ? "$ENV{MYSQL_HOME}/my.cnf" : undef),
                $opt{'extra-file'},
+               </etc/mysql/conf.d/*.cnf>,
                ($ENV{HOME} ? "$ENV{HOME}/.my.cnf" : undef));
 }