When SuPHP is used regular apache2 directives are ignored.Directives have to be redirected to php.ini file.
To accomplish this use .htaccess file in vhost and use the redirect* line in it
Or as in my case add the redirect* line in ISPconfig2/3 apache directives.
Redirect* line:
suPHP_ConfigPath /home/websites/domain.tld/
To update this:ISPconfig3 Is now updated so use custom php.ini or apache directives tabs to add custom lines with out any need of redirection
. So in this case my above suggestion is absolute.