@Atcold: I'm not sure how that can happen with the recent betas. The first element in each of the lists should be None. And, there should be no way for the dialog to be sorted by that column. Could you send me a copy of you "annotations.json" file? This is in your calibre configuration directory in the plugins sub-directory and contains the options you have used for the plugin.
But, the attached beta should fix this. I have tested it with my Kobo devices. There is differences in how the other devices are handled, and this problem has come up because of KFX format books (and other changes I made).
Edit: Now with the actual attachment!