Alexy,
 
Yes, Cyrus is supposed to handle POP3 and Imap.  That is why I think it is so strange that the email via the webmail interface don't match the IMAP, which don't match the POP3.
 
I did nothing but stick the SuSE CD into the computer and boot from there, no configuration magic... just a typical out of the shrink wrap box.
 
Got any ideas where the other emails are going?
 
Thanks
Randy