I think this is bug. When placing Nav Link (not Nav Link Proxy) inside blueprint, under parent (main) mesh - for example floor or room, changing nav link origin not working. No matter where Nav Link is moved from blueprint parent mesh origin, it working always with parent origin only. This making design much harder.
Could you provide a screenshot of your blueprint so I can see what you’re referring to, exactly? It would help to have an example that I can look at for reference.
After speaking with our developers, the Nav Link component’s transform is currently ignored. As a result, I’ve entered a bug report, which you can track using the link below: