Yes, for example in 6.2 donotifymod.php I replaced this:
$mailsend = mail("$Email","$subject","$thismessage",$header);
with:
// Send a PM instead of e-mail
$msg = "$mailbody<br>{$ubbt_lang['TO_READ']}<br><a href='{$config['phpurl']}/showthreaded.php?Board=$Board&Number={$Number}'>View Message</a><br><br>* This notice is only sent to moderators of $title";
$html -> send_message(2,$Mod,"AutoMsg: Moderator Notification by $echoname",$msg); //From user 2 (Admin)
Outside the loop you can also send a PM to a specific user account if for example you want Admin to get all notices and Admin isn't a moderator in all forums.