Messages lost after rebuilding mailbox

Inbox had a message that said it was damaged --rebuilt as suggested and then each message in it said that it had not yet been downloaded from the server. Tried rebuilding it again and now all of the messages are gone. Then tried importing inbox.mbox which produced a selection of email that did not resemble the original inbox.
Are my original inbox messages retreivable?

No, it isn't clear. I still don't know what does "I attempted to import files from it (unsuccessfully)" mean, nor what does "I then tried to reconstruct the inbox from the mac back up" mean. These statements are too vague.
The only items within an *.mbox folder used by Mail 2.x are Info.plist and the Messages folder. Any other files you may see there are almost certainly Mail 1.x files that Mail 2.x leaves there after the conversion. This is poorly explained in Mac OS X 10.4 Mail: Some mailbox files used by Mac OS X 10.3 are not deleted after importing. The article only talks about mailboxes in ~/Library/Mail/Mailboxes/, but the same could also be said about mailboxes in any of the "POP-" account folders.
As long as you keep a backup copy of the old files for a while (at least, until you're sure everything was converted properly), they can safely be removed from the Mail folder. OnyX has a Cleaning > Misc Options > Temporary and obsolete items option for getting rid of all those files.
Note that if you see strangely-named Messages-T0x... folders, these aren't old files from previous versions of Mail, but rather an indication that there is something amiss. More specifically, these are temporary folders created by Mail 2.x during an import or a reindexing process (e.g. rebuilding a mailbox) that Mail should have deleted when done. Their presence is a clear indication that something didn't work as expected.
Importing a mailbox that still has the old files there would produce different results depending on how you try to import it. Importing it as Other, for example, would cause Mail to look at the old mbox file only, ignoring everything else, which almost certainly is not what you want.
In order to import the current mailbox contents, you must first move all the *.emlx files out of the Messages-T0x... folders and into Messages proper, then get rid of the (now empty) Messages-T0x... folders. In Mail, do File > Import Mailboxes, choose Mail for Mac OS X as the data format, and follow the instructions. Note that Mail wants you to select the folder that contains the mailbox to be imported, not the *.mbox folder itself.

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    OPEN LETTER TO THE MAIL 2.0 CODING TEAM. RSVP.
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    ####<Feb 4, 2013 10:56:31 AM CST> <> <> <1359996991531> <116727> <> <> <SystemModule-0!TESTBOQ> <ConsumerCreate> <<anonymous>> <MC:CA(local):OAMI(DefaultServer.jms.connection19.session20.consumer22)> <> <>
    ####<Feb 4, 2013 10:56:31 AM CST> <> <> <1359996991552> <840437> <> <> <SystemModule-0!TESTBASEQ> <ConsumerCreate> <<anonymous>> <MC:CA(local):OAMI(DefaultServer.jms.connection23.session24.consumer26)> <> <>
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    &lt;mes:WLJMSMessage xmlns:mes="http://www.bea.com/WLS/JMS/Message"&gt;&lt;mes:Header&gt;&lt;mes:JMSDeliveryMode&gt;PERSISTENT&lt;/mes:JMSDeliveryMode&gt;&lt;mes:JMSExpiration&gt;0&lt;/mes:JMSExpiration&gt;&lt;mes:JMSPriority&gt;4&lt;/mes:JMSPriority&gt;&lt;mes:JMSRedelivered&gt;false&lt;/mes:JMSRedelivered&gt;&lt;mes:JMSTimestamp&gt;1359997510782&lt;/mes:JMSTimestamp&gt;&lt;mes:Properties/&gt;&lt;/mes:Header&gt;&lt;mes:Body&gt;&lt;mes:Text&gt;TestCase1&lt;/mes:Text&gt;&lt;/mes:Body&gt;&lt;/mes:WLJMSMessage&gt;> <>
    ####<Feb 4, 2013 11:05:22 AM CST> <> <> <1359997522152> <866698> <ID:<237345.1359997510782.0>> <> <SystemModule-0!TESTBASEQ> <Retry exceeded> <<WLS Kernel>> <> <&lt;?xml version="1.0" encoding="UTF-8"?&gt;
    &lt;mes:WLJMSMessage xmlns:mes="http://www.bea.com/WLS/JMS/Message"&gt;&lt;mes:Header&gt;&lt;mes:JMSDeliveryMode&gt;PERSISTENT&lt;/mes:JMSDeliveryMode&gt;&lt;mes:JMSExpiration&gt;0&lt;/mes:JMSExpiration&gt;&lt;mes:JMSPriority&gt;4&lt;/mes:JMSPriority&gt;&lt;mes:JMSRedelivered&gt;true&lt;/mes:JMSRedelivered&gt;&lt;mes:JMSTimestamp&gt;1359997510782&lt;/mes:JMSTimestamp&gt;&lt;mes:Properties/&gt;&lt;/mes:Header&gt;&lt;mes:Body&gt;&lt;mes:Text&gt;TestCase1&lt;/mes:Text&gt;&lt;/mes:Body&gt;&lt;/mes:WLJMSMessage&gt;> <>
    ####<Feb 4, 2013 11:05:22 AM CST> <> <> <1359997522152> <885695> <ID:<237345.1359997510782.0>> <> <SystemModule-0!TESTBOQ> <Produced> <<WLS Kernel>> <> <&lt;?xml version="1.0" encoding="UTF-8"?&gt;
    &lt;mes:WLJMSMessage xmlns:mes="http://www.bea.com/WLS/JMS/Message"&gt;&lt;mes:Header&gt;&lt;mes:JMSDeliveryMode&gt;PERSISTENT&lt;/mes:JMSDeliveryMode&gt;&lt;mes:JMSExpiration&gt;0&lt;/mes:JMSExpiration&gt;&lt;mes:JMSPriority&gt;4&lt;/mes:JMSPriority&gt;&lt;mes:JMSRedelivered&gt;false&lt;/mes:JMSRedelivered&gt;&lt;mes:JMSTimestamp&gt;1359997510782&lt;/mes:JMSTimestamp&gt;&lt;mes:Properties/&gt;&lt;/mes:Header&gt;&lt;mes:Body&gt;&lt;mes:Text&gt;TestCase1&lt;/mes:Text&gt;&lt;/mes:Body&gt;&lt;/mes:WLJMSMessage&gt;> <>
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    &lt;mes:WLJMSMessage xmlns:mes="http://www.bea.com/WLS/JMS/Message"&gt;&lt;mes:Header&gt;&lt;mes:JMSDeliveryMode&gt;PERSISTENT&lt;/mes:JMSDeliveryMode&gt;&lt;mes:JMSExpiration&gt;0&lt;/mes:JMSExpiration&gt;&lt;mes:JMSPriority&gt;4&lt;/mes:JMSPriority&gt;&lt;mes:JMSRedelivered&gt;false&lt;/mes:JMSRedelivered&gt;&lt;mes:JMSTimestamp&gt;1359997530728&lt;/mes:JMSTimestamp&gt;&lt;mes:Properties/&gt;&lt;/mes:Header&gt;&lt;mes:Body&gt;&lt;mes:Text&gt;TestCase1&lt;/mes:Text&gt;&lt;/mes:Body&gt;&lt;/mes:WLJMSMessage&gt;> <>
    ####<Feb 4, 2013 11:05:31 AM CST> <BEA1-00027A05C5399E472B1E-574C53746F72655F44656661756C74446F6D61696E5F46696C6553746F72652D30> <> <1359997531209> <972000> <ID:<237345.1359997510782.0>> <> <SystemModule-0!TESTBOQ> <Consumed> <<anonymous>> <MC:CA(local):OAMI(DefaultServer.jms.connection19.session20.consumer22)> <&lt;?xml version="1.0" encoding="UTF-8"?&gt;
    &lt;mes:WLJMSMessage xmlns:mes="http://www.bea.com/WLS/JMS/Message"&gt;&lt;mes:Header&gt;&lt;mes:JMSDeliveryMode&gt;PERSISTENT&lt;/mes:JMSDeliveryMode&gt;&lt;mes:JMSExpiration&gt;0&lt;/mes:JMSExpiration&gt;&lt;mes:JMSPriority&gt;4&lt;/mes:JMSPriority&gt;&lt;mes:JMSRedelivered&gt;false&lt;/mes:JMSRedelivered&gt;&lt;mes:JMSTimestamp&gt;1359997510782&lt;/mes:JMSTimestamp&gt;&lt;mes:Properties/&gt;&lt;/mes:Header&gt;&lt;mes:Body&gt;&lt;mes:Text&gt;TestCase1&lt;/mes:Text&gt;&lt;/mes:Body&gt;&lt;/mes:WLJMSMessage&gt;> <>
    ####<Feb 4, 2013 11:05:41 AM CST> <> <> <1359997541259> <230216> <ID:<237345.1359997530728.0>> <> <SystemModule-0!TESTBASEQ> <Retry exceeded> <<WLS Kernel>> <> <&lt;?xml version="1.0" encoding="UTF-8"?&gt;
    &lt;mes:WLJMSMessage xmlns:mes="http://www.bea.com/WLS/JMS/Message"&gt;&lt;mes:Header&gt;&lt;mes:JMSDeliveryMode&gt;PERSISTENT&lt;/mes:JMSDeliveryMode&gt;&lt;mes:JMSExpiration&gt;0&lt;/mes:JMSExpiration&gt;&lt;mes:JMSPriority&gt;4&lt;/mes:JMSPriority&gt;&lt;mes:JMSRedelivered&gt;true&lt;/mes:JMSRedelivered&gt;&lt;mes:JMSTimestamp&gt;1359997530728&lt;/mes:JMSTimestamp&gt;&lt;mes:Properties/&gt;&lt;/mes:Header&gt;&lt;mes:Body&gt;&lt;mes:Text&gt;TestCase1&lt;/mes:Text&gt;&lt;/mes:Body&gt;&lt;/mes:WLJMSMessage&gt;> <>
    ####<Feb 4, 2013 11:05:41 AM CST> <> <> <1359997541259> <250889> <ID:<237345.1359997530728.0>> <> <SystemModule-0!TESTBOQ> <Produced> <<WLS Kernel>> <> <&lt;?xml version="1.0" encoding="UTF-8"?&gt;
    &lt;mes:WLJMSMessage xmlns:mes="http://www.bea.com/WLS/JMS/Message"&gt;&lt;mes:Header&gt;&lt;mes:JMSDeliveryMode&gt;PERSISTENT&lt;/mes:JMSDeliveryMode&gt;&lt;mes:JMSExpiration&gt;0&lt;/mes:JMSExpiration&gt;&lt;mes:JMSPriority&gt;4&lt;/mes:JMSPriority&gt;&lt;mes:JMSRedelivered&gt;false&lt;/mes:JMSRedelivered&gt;&lt;mes:JMSTimestamp&gt;1359997530728&lt;/mes:JMSTimestamp&gt;&lt;mes:Properties/&gt;&lt;/mes:Header&gt;&lt;mes:Body&gt;&lt;mes:Text&gt;TestCase1&lt;/mes:Text&gt;&lt;/mes:Body&gt;&lt;/mes:WLJMSMessage&gt;> <>
    ####<Feb 4, 2013 11:05:41 AM CST> <BEA1-000A7A05C5399E472B1E-574C53746F72655F44656661756C74446F6D61696E5F46696C6553746F72652D30> <> <1359997541304> <943009> <ID:<237345.1359997530728.0>> <> <SystemModule-0!TESTBOQ> <Consumed> <<anonymous>> <MC:CA(local):OAMI(DefaultServer.jms.connection19.session20.consumer22)> <&lt;?xml version="1.0" encoding="UTF-8"?&gt;
    &lt;mes:WLJMSMessage xmlns:mes="http://www.bea.com/WLS/JMS/Message"&gt;&lt;mes:Header&gt;&lt;mes:JMSDeliveryMode&gt;PERSISTENT&lt;/mes:JMSDeliveryMode&gt;&lt;mes:JMSExpiration&gt;0&lt;/mes:JMSExpiration&gt;&lt;mes:JMSPriority&gt;4&lt;/mes:JMSPriority&gt;&lt;mes:JMSRedelivered&gt;false&lt;/mes:JMSRedelivered&gt;&lt;mes:JMSTimestamp&gt;1359997530728&lt;/mes:JMSTimestamp&gt;&lt;mes:Properties/&gt;&lt;/mes:Header&gt;&lt;mes:Body&gt;&lt;mes:Text&gt;TestCase1&lt;/mes:Text&gt;&lt;/mes:Body&gt;&lt;/mes:WLJMSMessage&gt;> <>
    Can someone help me figure out how I can debug what is going wrong here?

    Do you have a redelivery limit set on the producer or the destination? If you do, a message may be discarded once the limit is reached depends on your delivery-failure-params on the destination. You can configure to have the messages put into an error destination once they reach their redelivery limit.

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