I've recently run into the problem of a story being on two different sites (
http://www.fanfiction.net/s/8843117/1/ ,
http://archiveofourown.org/works/612...apters/1104270). It has the same title and same author, although one site has an extra chapter. When I tried to get the story from AO3 it tried to overwrite the FFN version which had more chapters. I don't usually notice when a story is updated. I only noticed because I knew that I had not gotten this story from AO3. If I had continued to get the story from AO3, I would have lost a chapter.
I realize this not a problem with the plugin itself, but I am unsure how I should handle it. Has anyone else had this problem? How did you deal with stories on mulitple sites?
Instead of immediately overwriting, would it be possible to compare the two epubs (for example look at word number) so that you could choose which one to keep? Or is there a way to create a new epub for each site so that I could compare the two manually?