As of this morning, my site has a strange display, where an article I published yesterday is showing up beside my new articles…right where the links usually go. I gave it some time, hoping it was a glitch in the system but still there.
This can happen if you forget to close a tag in your post.
The simplest fix is to go to the Settings / Writing tab of your dashboard and check the box that says “WordPress should correct invalidly nested XHTML”, then Save. That will normally fix it and prevent it from happening again in future.
Hmm, I tried that just now after reading what you wrote and its still there. I also tried to make that particular post that is out of place into a draft to see if the problem persisted and it did, it just moved the post before that into the side bar (where the links should be).