[Bug] Garbage/Duplicate section in output

Bug Description
There is a bug in this session: you can see the section Why route through the source note instead of linking the PDF directly and Wikilinks are the only thing that makes this a graph and not a folder of files appeared twice

Environment Info

• Platform: darwin
• Terminal: ghostty
• Version: 2.1.159
• Feedback ID: 658f285f-2bc8-4c8c-942d-44915d7e9cc0

Errors
<img width="1910" height="644" alt="Image" src="https://github.com/user-attachments/assets/fe06d190-ee2f-416c-aa75-a46220f0778f" />