I updated another one of my stories earlier. It took two hours to reflect that the fic in question was 119 chapters instead of 118. However, pressing on the link for the lastest chapter, just takes you to the "this chapters hasn't uploaded yet" page. Also, the system isn't treating the fic as if it's been updated, despite the it's showing that a new chapter has been updated. Usually, recently updated fics will move to the top of a writer's fic list. That isn't the case at the moment.
There's a difference between the various fanfiction downloaders and the official FF.Net App. While the website is still having troubles showing the recent uploads, the FF.Net does not. While I can't access the newest chapter of my recently updated fic on FF.Net, the FF.Net App not only shows the update, but has already downloaded the newest chapter. Whatever is glitch that is plaguing the website isn't affecting the functionality of the App itself.