I have what looks like the same issue. When I lock my screen with
"Super+L" the first time it goes into a flickering screen and the second
time it locks the session. Then I login again, one of my shell
extensions does not work anymore (PutWindows), and to make it work again
I have to uninstall and install it again. I also have the issue that the
Ubuntu dock does not auto-hide anymore unless I restart the session. I
am not sure whether these problems are all connected. I use Xorg on
Ubuntu 18.10. All these problems arose after updating from Ubuntu 18.04.

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You received this bug notification because you are a member of Desktop
Packages, which is subscribed to gnome-shell in Ubuntu.
https://bugs.launchpad.net/bugs/1796265

Title:
  Ubuntu Dock is missing after unlocking screen

Status in gnome-shell package in Ubuntu:
  Expired
Status in gnome-shell-extension-ubuntu-dock package in Ubuntu:
  Expired

Bug description:
  After locking the screen, unlocking it again does not return me to a
  properly working gnome-shell. I can see the desktop background and the
  top panel (which is responsive). However I cannot access the
  activities overview, and the Ubuntu dock is missing.

  One time I noticed that the search field from the activities overview
  was visible, and it was possible to search for an application. The
  search did return results, and it was possible to start applications,
  but they did not show up on the screen.

  In some cases I could run gnome-shell -r, but this would end the whole
  session and return me to the login screen.

  ProblemType: Bug
  DistroRelease: Ubuntu 18.10
  Package: gnome-shell 3.30.0-3ubuntu1
  ProcVersionSignature: Ubuntu 4.18.0-8.9-generic 4.18.7
  Uname: Linux 4.18.0-8-generic x86_64
  ApportVersion: 2.20.10-0ubuntu11
  Architecture: amd64
  CurrentDesktop: ubuntu:GNOME
  Date: Fri Oct  5 12:44:13 2018
  DisplayManager: gdm3
  EcryptfsInUse: Yes
  InstallationDate: Installed on 2017-07-03 (458 days ago)
  InstallationMedia: Ubuntu-GNOME 17.04 "Zesty Zapus" - Release amd64 (20170412)
  SourcePackage: gnome-shell
  UpgradeStatus: Upgraded to cosmic on 2018-10-05 (0 days ago)

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