Mail mysteriously duplicated all account and folder info

Booted machine this a.m. and mail application has duplicated account and folders and .mac has virtually nothing remaining. Any server issues?
What is the safest way to delete the duplicated acounts and folders without risking losing everything since the .mac account is now for the most part empty.
iMac 800   Mac OS X (10.4.7)  

Could you please elaborate? I'm having a hard time understanding (and believing) what you're saying.
How many accounts do you have and what type are they (POP, IMAP, .Mac)?
In the Finder, go to ~/Library/Mail/. With that folder open, do Edit > Select All (⌘A), then Edit > Copy (⌘C), and paste it in your reply to this post, to let me see the names of the files and folders present at the root level of the Mail folder.
Before actually posting that information, you may edit it so that the file/folder names do not reveal any details you wish to keep private, e.g. you may replace any real username with "username" if you wish; similarly, you may disguise any domain names you don't want to be revealed. Try to be consistent in how you disguise those details, though, as we may need to refer to them in subsequent posts.

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