Apparently, there is no clean path to get from the old version to the new version with the comments template intact. The new version of MT doesn't allow pop-up comments--you have to go to the individual entry page. So I decided that I'd just start with a fresh set of templates that work in the new software, and gradually restore the look of the page. At least we'll be functional. Now that I have a clean setup, the first thing I'll do is get comments working properly again, then I'll start reprettifying the site.
