Joe

This is because the function uninstall() in includes/packages.inc attempts:

        $ctrl = get_control_file("$cachepath/_init/config");

without checking if the file exists!

Preceding it with the following and encompassing the next few statements within it should alleviate it:

if (file_exists("$cachepath/_init/config")) {
        $ctrl = get_control_file("$cachepath/_init/config");

        $targetdir = $path_to_root.'/'.$ctrl['InstallPath'];

        $dpackage = new package("$cachepath/_data", $targetdir);

        $flist = $dpackage->extract_files(true);

        $success &= copy_files($flist, "$cachepath/_back", $targetdir, true);
}

This will of course not purge the module from the modules folder ($ctrl['InstallPath'] is undefined) but will remove the module's entry from the installed_extensions.php files.

@joe: please verify and incorporate in the stable repo.