If you open thunderbird -> edit-> account settings -> server settings *for the account in question* it should give you the default local folder mail is saved to.
On mine, that's $HOME/.thunderbird/*.default/etc/etc/
You may also check "synchronization and storage" on the left panel to insure your copying anything to the local machine
Seems more likely that your not pulling mail down than thunderbird misplaced it. Have you tried to send yourself a message?
if that works, doesn't work, gives you access to alternate dimensions....please let us know, nobody else gets' smarter when you have a solution you wont share.
Last edited by dijetlo; 05-16-2014 at 05:06 PM.