Mail is deleting messages (without my permission or action)

I posted this problem first in response to another problem but now I think this is a serious mail problem that others should be aware of.
Something is deleting my e-mail messages that are more recent then the last 10 days or so. This delete is ACROSS all mailbox folders and ACROSS all three of my e-mail accounts. My e-mail accounts are mac mail using IMAP and two other accounts using POP.
I am trying different things to see if there is anything on my computer that initiates this behavior. So far, I have turned off all of my mail RULES. And, I have disabled any of the automatic trash cleanup deletes.
There is one additional strange behavior. When ever I click on my main Inbox folder there is a double update (refresh) to the screen. Nothing is changed from what I can tell but the list of messages is refreshed twice. This never happened before today.
I would be very interested if anyone else has similar behavior.

If the behavior is still not normal, that could indicate a corrupt Preferences file. You should create a new user account for testing purposes only and try Mail in that account. If you make the settings the same as what you had in your original user account and the problem continues, that would indicate the problem is in that other account.
If that's the case, you should go to /users/<your username>/Library/Preferences and move the com.apple.Safari.plist file to your Desktop, then restart Mail and enter all your account information again. It is tedious, but that would be the only way to fix that problem, or eliminate it if it's not the problem.
Mulder

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Mail is deleting messages (without my permission or action)

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