Well I've just tested it on that webdiscuss news server and I managed to get all the messages from that thread with no problems. They didn't all come in in the first run though. This is because it only does one 'insert into forum' batch each time. So although all messages were retrieved and placed into usenet_article during the first run, it took three more runs to insert them correctly in order. The only other explanation is if the references weren't placed in your outgoing messgages correctly. I'll check the code in the newreply.php and newthread.php again.

On another note. I have come across a problem with the control panel if gzip is not enabled or output buffering is not on. You'll get the 'Cant add header' errors. I now see why Jelsoft didn't refresh the control panel each time a change is made. I'll look into fixing that tomorrow.