There is a similar case reported by other users. You may refer to the solution provided in the following link:
https://community.altera.com/discussions/quartus-prime/warning---signal-not-found-in-vcd-error-message-with-quartus-prime-lite-edition-/311579
Here are a few troubleshooting steps you can try:
1. Try opening the project using a different version of Quartus and simulate it again.
(Please archive the project as a backup: Project > Archive Project)
2. Check if starting the new project from scratch helps resolve the issue.
3. Consider deleting the quartus2.qreg file.
The quartus2.qreg file stores user GUI settings and preferences. These preferences are not critical to the functionality of the software, so it is safe to delete the file.
However, this will reset saved preferences such as window size/position, table column sorting/filtering, colors, etc.
4. You may also consider reinstalling Quartus to see if that resolves the issue.
Additionally, I recommend simulating using the Questa simulator tool directly instead of the Simulation Waveform Editor (University Program WVF). As it is a legacy tool.
Regards,
Richard Tan