How do I make Mail stop showing notes in my inbox?

The obvious answer is to turn off the "show notes in Inbox" option in the Mailbox Behaviours tab of Account Info, but that option is not sticking. Mail in Lion keeps re-enabling the "show notes in Inbox" option across Mail restarts. The checkbox is not disabled -- it lets me turn it off, and after a view refresh it will stop displaying notes for the session. But when I restart mail, my notes are back, cluttering up my inbox.
I checked my com.apple.mail.plist file in ~/Library/Preferences, and the <key>MailShowNotes</key> was <true/> regardless of what I select in the Account Info dialog. I used a text editor to explicitly set the option to <false/> when Mail was not running, and now the option in the plist files stays <false/>, but Mail keeps showing notes in my inbox.
I thought maybe it was a file permissions problem, because after a clean Lion install and Migration Assistant migration of my user account, all the files in my user directory were marked with the ACL permission "group:everyone deny delete". That setting causes all manner of grief, as Lion was unable to unlock files when I clicked Unlock after being prompted, and so Lion was unable to re-save any of my files. Other settings like desktop wallpaper also refused to stick. I used chmod at the command line to strip that setting off of all my files and then finally Lion started working properly.
However, the com.apple.mail.plist file in ~/Library/Preferences, and its permissions, seem to get recreated with every Mail session. It does not have the "group:everyone deny delete" ACL permission set.
Seems to be a bug in Mail, or some other source that is overriding the preference.

I have been having similar issues with syncing notes, but do not want them to show up in my 'inbox' either.
I have tried both methods below in Lion Mail:
1. Try rebuilding the mailbox and see what happens (Mailbox > Rebuild). If that does nothing, consider going to System Preferences > Mail, Contacts, & Calendars and unchecking iCloud. Let it do its thing and confirm that the account isn't shown in Mail any more. Then quit Mail and turn on iCloud again. Now is it gone when you launch Mail?
2. Mail -> Preferences -> mailbox behaiors tab and uncheck "show notes in inbox"...I cannot do this as it won't let me save the setting, comes up with a message- The “Incoming Mail Server” field cannot be empty.
The 'Incoming Mail Server' field is not empty, although it is greyed out (p03-imap.mail.me.com) so cannot change it? Anyone else having this issue and know how to resolve it?
S

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