From what I can see, you have your users setup on BIS (BWC). In order for the messages to be marked as read, enable POP access on the Exchange server and integrate their accounts with the respective BIS accounts. When the BIS servers access the email from the Exchange server, it will mark them as read. Check the link for more information. http://www.blackberry.com/knowledgec...45355&vernum=6
An alternative to this, is to setup the users on desktop redirector. They will be able to send/receive using their exchange mailbox and they can reconcile as well. This way you would only have to connect your BB once to your desktop and do a reconcile now for all the emails.