The Hotlist can be easily hidden and then bookmarked that way. The URL will have a piece that says hh=(either 0 or 1) for the state of "hide hotlist" so if you bookmark the HTML site with the hotlist closed, it will be closed still when you open that bookmark. There is no way to filter out particular Folders, but you can bookmark any one Folder if you navigate to it through "sort" on the HTML site.
Another option would be the RSS feed: http://www.toodledo.com/connect_rss.php
There would be no need to worry about the hotlist in that case, and again you can get links to specific Folders.
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