I installed a website as a webapp in GNOME Web (flatpak) and removed it in Web, but it’s still showing in GNOME Shell’s overview. I hunted my machine for any possible .desktop file that might exist and was unable to find anything. I have checked all the possible locations and have come up with nothing.
Shameless plug or not, this is an amazing solution and fixed my issue… The .desktop file for some reason was not following Web’s webapp naming conventions and hiding in plain sight!
This should be a default extension for GNOME Shell, sir; excellent work.