I apologize for not including others, I figured that it would likely all be the same error.
The latest update fixes all the stories I was finding issues with.
Now, as it is, the only other things I can find that are not working quite right is the synopsis. When converting it into comments, it seems paragraphs are disappearing and everything is running together. I noticed this yesterday, but reconfirmed it today. Any story I look at is this way.
For example:
http://royalroadl.com/fiction/4293 should have a synopsis of 4 paragraphs, and it is turned into a single one in the comments section.
http://royalroadl.com/fiction/1439 should have 3 paragraphs, and again is turned into a single comment paragraph.
Both of these are picked from the top-rate list, just picking some that have several paragraphs in the description.