"On My Mac" vs "My .Mac Account" in Apple Mail

Hello Everyone,
Since I upgraded to Leopard this weekend, Apple Mail has been acting differently than it used to with my .Mac service.
First of all the underlying theory behind IMAP is to keep everything in sync on the server and on the local computer.
Apple Mail has created the following two different worlds in Apple Mail's Mailbox: "On My Mac" and "My .Mac Account".
The "My .Mac Account" is the account I created to setup my .Mac in Mail>Preferences>Accounts. But the "On My Mac" just popped out of nowhere in the following places:
Trash
On My Mac
My .Mac Account
it has also created TWO exactly identical Mailbox folders with the following headers and subheaders in the Mailbox pane on the left:
On My Mac
Deleted Messages (My .Mac Account)
Drafts (My .Mac Account)
On My Mac
Deleted Messages (My .Mac Account)
Drafts (My .Mac Account)
Why it has created this in the first place and why it has created it twice nonetheless baffles me.
I find it confusing between "On My Mac" and "My .Mac Account".
It was much better before when in the previous Apple Mail on Tiger, we just had Inbox, Drafts, Sent, and Trash. Simple.
I figured out how to get rid of "On My Mac" in the Trash and the two main folders it created twice, but going into preferences>accounts>mailbox behaviors and unchecking all boxes that says to store anything on the server, including drafts, and trash items.
But by unchecking all those boxes, not everything will stay in sync between my computer and the server. If I keep them checked, I get all those "On My Mac" stuff popping up in Apple Mail.
What is there to do? Is there a way to fix this? Thank you very much!
Nicolas

Solution: Go to the User Library and search for the Containers, Apple's newest annoying "feature". Here you find the true Mail folder. Delete everything (unless you have any POP-Accounts, then this solution won't apply). Also go to the Mail folder in User Lib Preferences and delete it entirely.
Then empty the User Caches folder to the Trash, don't empty it.
Open System Settings, delete your iCloud account. If it cannot be deleted due to an error concerning AppleMail, leave it as is.
Restart Mac.
Empty Trash.
Launch AppleMail. Create all accounts other than iCloud.
Create iCloud Account by NOT using the template in the dialog list - do it as "other", AppleMail will recognize it and do the rest.
Open System Settings, create your old iCloud acount again.
Restart Mac.
Done.

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