After aborted rebuild in Mail: I can see and select the message in the center pane and when I click on it to display, I get "Loading" text, but nothing comes up

I have searched quite a bit to find a resolution to this problem, with no success. Any help would be appreciated.
I decided to rebuild my inboxes by following this advice: http://support.apple.com/kb/PH11704. The rebuild took several hours and at 96% (4 minutes remaining apparently), the indexing froze (that is, after 8 hours, the message was still telling me "4 minutes left"). I forced quit mail, restored the previous Envelope files from the trash, and everything seemed fine.
However, since this failed attempt, I can see and select the message in the center pane and when I click on it to display, I get "Loading" text, but nothing comes up. All messages in my various inboxes have the reloading problem, EXCEPT messages that I downloaded since the aborted rebuild (in other words, there are about 40 messages that I downloaded since I tried the rebuild and I have no problem with these). The other 70,000 messages however wont load, even though I can see them in the centre pane and spotlight has no problem finding them and showing me their contents (when I hover the mouse over the message). When I click on the message in spotlight, mail opens and the loading problem re-occurs.
Since then, based on various suggestions I found for similar issues, I have used Disk Utility to verify and repair permissions and the drive. I used Onix to rebuild the Mail index (that only took about a minute - I am not sure how to interpret this when compared to the hours the rebuild took with Mail). No joy, I still have the same problem. I even restored one of my inboxes via Time Machine and the same issue with loading continues.
I am using ML 10.8.2. I have a combination of IMAP accounts (work) and POP accounts (personal). The issue of loading occurs irrespective of the account.
I am baffled and am now considering migrating to either Thunderbird or Postbox 3 to try and solve my problem. I prefer to stay with Mail. I should note also that I am using MailTags with Mail (http://www.indev.ca/MailTags.html), although I have not used any of the features. I upgraded to ML from SL about 2 weeks ago. It was very smooth and there appear to be no issues (not sure how helpful this is and probably not at all related to this issue).
Any suggestions much appreciated!

Maybe these will help:
https://discussions.apple.com/message/17677533#17677533
https://discussions.apple.com/message/18324129#18324129
https://discussions.apple.com/message/18203126#18203126

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