AFAIK, if you launch a gnome session, and then you return to the ubuntu
session, you shouldn't lost your configuration. So maybe you can do a
test in the gnome shell session to check if the patch works, thus
allowing canonical to integrate it, but use the ubuntu session for your
day-to-day work. Someone here that confirms this?

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https://bugs.launchpad.net/bugs/1883174

Title:
  Some desktop icons disappear

Status in gnome-shell-extension-desktop-icons:
  Unknown
Status in gnome-shell-extension-desktop-icons package in Ubuntu:
  In Progress

Bug description:
  OS: Ubuntu 20.04
  GNOME: 3.36.2
  Extension: 3.36.2

  Sometimes, some icons in my Desktop folder just don't appear on the
  desktop. The missing icons aren't invisible, it's like they're not in
  the folder. Clicking on the empty space where they should be does
  nothing. Mousing over the empty space does nothing. See attached
  screenshot. As you can see, there are many missing.

  Not consistently reproducible, but frequent.

  This isn't great info, I know. Let me know what else I can provide.

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