Welcome to the forum!
I can think of a couple of options for fixing this.
1 -- If the path is finished and you don't plan to edit it any further (except for fixing the anomaly), you can do Path menu > Object to Path. Switch to the Node tool, and you can drag nodes and or handles, to fix it. In the example given, probably a slight adjustment of one handle should do it.
2 -- Adjust the ellipse shape. Open Path menu > Path Effects, and click on the icon which looks just like the Node tool icon. That will display the pattern, which is likely a tiny, tiny circle, and not necessarily anywhere close to your original path. When you find it, zoom in. Then make it flatter. I would not consider this an exceptable requirement. But it could fix it.
However, I can't seem to reproduce the. problem. Could you share an SVG file, which shows that problem? I'm thinking you might accidentally have another LPE on the path. Or some other unintended option.