Thunderbird Email Rules

Mine runs automatically. I may be misunderstanding your description and you may have already done this. If you go Tools/Message Filters, you can click on your rule, then click on the box in the 'Enabled' column to have it run with all incoming message. I had this problem and found the menu after a search.

If the filter is under "Local Folders" it will not run automatically for the other account. Move the filter to the account you want it to run on. See the drop down box at the top of the filters.
I noticed there wasn't a copy function so I copied the appropriate ./Local\ Files/msgFilterRules.dat lines to ./ACCOUNT/msgFilterRules.dat.

EDITOR'S NOTE: Yes, that's what I ended up doing. But as you say, TB does not provide a way to copy the filters from one place to another. The annoying thing is that TB put all my folders and filters in Local Folders when it converted my data from Outlook Express. The issue of filters not running automatically in Local Folders is non-intuitive and unnecessarily confusing.

This describes the process of setting up rules (or filters) in Thunderbird:

http://www.freeemailtutorials.com/mozillaThunderbird/filtersInThunderbird.cwd

My Thunderbird is setup correctly and it still has this same problem. The filters are in the correct mail accounts and they are enabled but from some reason one of my accounts just will not run it's filters unless I manually do it. As of yet I can find no fix.

I have a file which name is XY and when sender like (xy@xy.com) send me e-mail how can I do that this mail which sender is xy@xy.com automatically go in folder XY???Thank's
=))

EDITOR'S NOTE: You can create a filter where FROM BEGINS WITH XY and then MOVE MESSAGE TO the Local Folder XY.