I installed the latest FileZilla over my previous installation to update it and it removed all my settings and site manager entries. Lucky I had a backup of the settings to import. However, after using FileZilla and exiting it, I have noticed it is still running within Win 7 task manager. I have to select the process and end it to remove it.
In doing so, the next time I run FileZilla it tells me it didnt exit properly and all my FileZilla settings and site manager options are default or missing again.