To answer the OP...
I regret to inform you that it is not currently possible to get a "stock" os6 theme with trays & have a hidden today feature. This is due to RIM's built in limitations on the Theme Builder software. It will not allow us to add the code necessary for hidden today or hotkeys when using the default os6 theme format. To get your hidden today feature you will need to look for something that's not the stock/default os6 theme based.
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