Hi Ben,
I’ve had this issue and seem to have solved it by going to the Twitter Tools Admin page (Settings -> Twitter Tools) and in the list of Twitter accounts, clicking one of them. This gave me a tick box I could tick… it’s hardly intuitive though!
I’m also suffering from this issue on a site.
The only thing I can think that’s different between this and other sites is the fact that this site is using Suffusion as a theme, and also has some top-level pages which are not linked to in the site.
Thanks,
I’ve just tested it on one of the sites I needed it for, and it seems to have worked correctly…
Colin
(note the code posted above was unteted, and may actually vary by line number!)