I've used the new changed version with phpurl on both types of configurations:
1) autoprepend the path
2) no autoprepend of the path
and in both instances phpurl works. I would suggest you check your config file to make sure your path to wwwthreads is set correctly. An incorrect path would result in the behavior you're seeing.
// Url to the main WWWThreads php install
$config['phpurl'] = "http://www.yourdomain.com/path/to/wwwthreads";
And be sure to see whether or not your path has a trailing slash, that too could be a problem.
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Shalazar
www.charisma-carpenter.com