Thanks for the tips.  No extensions were present,

  ~$ cd ~/.local/share/gnome-shell/
  ~/.local/share/gnome-shell$ ls -alrt
  total 12
  -rw-rw-r--  1 mcra mcra    0 Oct 13  2024 update-check-46
  drwx------ 25 mcra mcra 4096 Jun  9 23:26 ..
  -rw-rw-r--  1 mcra mcra 1641 Jun  9 23:37 application_state
  drwx------  2 mcra mcra 4096 Jun  9 23:37 .


It looked like apport would upload a lot of text without me having a chance to 
inspect or redact it so I did the following first:

I ran `apport-cli --save /tmp/br.txt gnome-shell` and saw it generates a lot of 
log noise,
then I used this to cook the noise down to unique entries.

  ~$ perl -ne 'next unless s{^ \[\d+\.\d+\] buttle gnome-shell\[\d+\]: }{}; 
s{(Gjs-WARNING \*\*:| \*\* Message:) \d+:\d+:\d+\.\d+: }{$1 T:T:T.T: }; 
s{^DING: \(gjs:\d+\)}{DING: (gjs:NNNNN)}; if (m{Window manager warning: .* 
appears to be one of the offending windows with a timestamp of .*\.  Working}) 
{ s{ \d+\.}{ NNNN.}; s{ 0x[0-9a-f]+}{ 0xHHHHH} }  if (m{Window manager warning: 
last_\w+_time .* is greater than comparison timestamp}) { for ($_,$_) { 
s{\(\d+\)}{(NNNNNN)} } }  if (m{Object \.Gjs_ui_messageTray_Notification \(0x.* 
has been already disposed}) { s{0x[0-9a-f]+}{0xHHHHHH} }  print' /tmp/br.txt 
|sort|uniq -c 
      1 clutter_actor_set_allocation_internal: assertion '!isnan (box->x1) && 
!isnan (box->x2) && !isnan (box->y1) && !isnan (box->y2)' failed
      1 ../clutter/clutter/clutter-actor.c:8692: Actor 'unnamed [StBin]' tried 
to allocate a size of -2147483648.00 x -2147483648.00
      1 ../clutter/clutter/clutter-actor.c:8692: Actor 'unnamed 
[StDrawingArea]' tried to allocate a size of -2147483648.00 x -2147483648.00
     92 clutter_timeline_set_auto_reverse: assertion 'CLUTTER_IS_TIMELINE 
(timeline)' failed
     92 clutter_timeline_set_repeat_count: assertion 'CLUTTER_IS_TIMELINE 
(timeline)' failed
      2 Cursor update failed: drmModeAtomicCommit: Invalid argument
     69 DING: 0 DesktopManager() 
["/usr/share/gnome-shell/extensions/[email protected]/app/desktopManager.js":264:12]
     69 DING: 1 anonymous() 
["/usr/share/gnome-shell/extensions/[email protected]/app/ding.js":180:25]
     69 DING: 2 anonymous() 
["/usr/share/gnome-shell/extensions/[email protected]/app/ding.js":197:20]
     69 DING: 3 <TOP LEVEL> 
["/usr/share/gnome-shell/extensions/[email protected]/app/ding.js":206:12]
     70 DING: DBus interface for File-roller (org.gnome.ArchiveManager1) is now 
available.
     69 DING: DBus interface for Gvfs daemon (org.gtk.vfs.Metadata) is now 
available.
     69 DING: DBus interface for Nautilus (org.freedesktop.FileManager1) is now 
available.
     69 DING: DBus interface for Nautilus (org.gnome.Nautilus.FileOperations2) 
is now available.
     69 DING: DBus interface for Switcheroo control 
(net.hadess.SwitcherooControl) is now available.
     69 DING: Detected async api for thumbnails
     69 DING: (gjs:NNNNN): Gjs-WARNING **: T:T:T.T: GLib.unix_signal_add has 
been moved to a separate platform-specific library. Please update your code to 
use GLibUnix.signal_add instead.
     69 DING: GNOME nautilus 46.2
     69 DING: ** Message: T:T:T.T: Connecting to 
org.freedesktop.Tracker3.Miner.Files
     43 Error in size change accounting.
     92 g_signal_connect_data: assertion 'G_TYPE_CHECK_INSTANCE (instance)' 
failed
     92 invalid (NULL) pointer instance
      1 JS ERROR: TypeError: this.actor is null
     69 Launching DING process
      3 libinput error: event5  - PIXA3848:01 093A:3848 Touchpad: kernel bug: 
Touch jump detected and discarded.
      7 meta_window_set_stack_position_no_sync: assertion 
'window->stack_position >= 0' failed
      2 Object .Gjs_ui_messageTray_Notification (0xHHHHHH), has been already 
disposed — impossible to access it. This might be caused by the object having 
been destroyed from C code using something such as destroy(), dispose(), or 
remove() vfuncs.
      2 Object .Gjs_ui_messageTray_Notification (0xHHHHHH), has been already 
disposed — impossible to emit any signal on it. This might be caused by the 
object having been destroyed from C code using something such as destroy(), 
dispose(), or remove() vfuncs.
     69 Received notification for window. 0 notifications remaining.
      3 See 
https://wayland.freedesktop.org/libinput/doc/1.25.0/touchpad-jumping-cursors.html
 for details
      2 Window manager warning: 0xHHHHH appears to be one of the offending 
windows with a timestamp of NNNN.  Working around...
     15 Window manager warning: Event has no timestamp! You may be using a 
broken program such as xse.  Please ask the authors of that program to fix it.
      2 Window manager warning: last_focus_time (NNNNNN) is greater than 
comparison timestamp (NNNNNN).  This most likely represents a buggy client 
sending inaccurate timestamps in messages such as _NET_ACTIVE_WINDOW.  Trying 
to work around...
      3 Window manager warning: last_user_time (NNNNNN) is greater than 
comparison timestamp (NNNNNN).  This most likely represents a buggy client 
sending inaccurate timestamps in messages such as _NET_ACTIVE_WINDOW.  Trying 
to work around...
    167 Window manager warning: Overwriting existing binding of keysym 31 with 
keysym 31 (keycode a).
    167 Window manager warning: Overwriting existing binding of keysym 32 with 
keysym 32 (keycode b).
    167 Window manager warning: Overwriting existing binding of keysym 33 with 
keysym 33 (keycode c).
    167 Window manager warning: Overwriting existing binding of keysym 34 with 
keysym 34 (keycode d).
    167 Window manager warning: Overwriting existing binding of keysym 35 with 
keysym 35 (keycode e).
    168 Window manager warning: Overwriting existing binding of keysym 36 with 
keysym 36 (keycode f).
    168 Window manager warning: Overwriting existing binding of keysym 37 with 
keysym 37 (keycode 10).
    168 Window manager warning: Overwriting existing binding of keysym 38 with 
keysym 38 (keycode 11).
    168 Window manager warning: Overwriting existing binding of keysym 39 with 
keysym 39 (keycode 12).
      1 Window manager warning: W1 appears to be one of the offending windows 
with a timestamp of NNNN.  Working around...

-- 
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/2113786

Title:
  Dark rectangle over gnome-terminal is a ghost of a "visual alert"

Status in gnome-shell package in Ubuntu:
  Incomplete

Bug description:
  I started getting dark rectangles obscuring my main gnome-terminal
  windows when I left the session locked for a while. Description of
  chasing and removing these is at
  https://linux.codidact.com/posts/293718 , and the screenshot below
  shows some of those rectangles after I poked their size and opacity to
  better illustrate what happens.

  Now I found the cause and a recipe to reproduce the bug.

  1. Open a gnome-terminal (3.52.0-1ubuntu2) or xterm (390-1ubuntu3) window; 
but not foot (1.16.2-2ubuntu0.1) because it does not seem to be able to alert 
on terminal bell. For better confirmation: make the window a distinctive size, 
not full screen.
  2. In gnome-control-center go to Accessibility > Hearing > Visual Alerts. 
Enable for "entire window". Bug seems not to trigger for "entire screen", but I 
didn't try hard because I don't want to dig myself out of that mess.
  3. Run something that generates ASCII BEL for the remainder of the test such 
as `while true; do echo -ne \\a; sleep 1; done` . In my case it was the 
occasional bell of an email, a random factor which made it harder to figure out 
the cause.
  4. Lock the screen. Bug does not trigger when screen is active. By rectangle 
counting, I suspect the bug also triggers during the password unlock dialog.
  5. Expected: each visual alert to be finished and gone within a second of the 
BEL.
  6. What you find when you unlock: a pile of semi-transparent dark rectangles 
stacked on your alerting window, approximately one per BEL emitted during the 
lock time. One or two might leave the text legible but dim, but more often the 
window is plain black.
  7. Uf necessary, or you are curious about what they are: use the Wayland 
looking glass to find and delete the rectangles. 
https://linux.codidact.com/posts/293718
  8. Switch Visual Alerts off and be grateful that you don't really need them. 🫣

  Other notes that might be relevant:

  Grok advises that gnome-shell is the package providing this a11y
  function, so that's why I'm offering the report here.

  Grok also advises to give `journalctl /usr/bin/gnome-shell` output,
  but there is nothing recent ie. since last reboot.

  The opacity of these rectangles seems to vary, as if the visual alert
  were progressing as usual and then got an exception which prevented it
  becoming transparent and being deleted?

  It seems the visual alert was incomplete and not deleted. Mouse clicks
  can pass through them but the window's image is blocked or greatly
  darkened.

  The size of the rectangle seems to match the area flashed. This is
  more obvious after watching xterm flash repeatedly.

  With gnome-terminal it is possible to drag tabs out of the obscured
  window to "rescue" them... if you can see or guess where the tab is.

  ---

  Using a fairly standard Ubuntu 24.04.2 LTS Noble desktop on x86_64,

  $ lsb_release -rd
  No LSB modules are available.
  Description:  Ubuntu 24.04.2 LTS
  Release:      24.04
  $ apt-cache policy gnome-shell
  gnome-shell:
    Installed: 46.0-0ubuntu6~24.04.9
    Candidate: 46.0-0ubuntu6~24.04.9
    Version table:
   *** 46.0-0ubuntu6~24.04.9 500
          500 http://archive.ubuntu.com/ubuntu noble-updates/main amd64 Packages
          100 /var/lib/dpkg/status
       46.0-0ubuntu6~24.04.3 500
          500 http://security.ubuntu.com/ubuntu noble-security/main amd64 
Packages
       46.0-0ubuntu5 500
          500 http://archive.ubuntu.com/ubuntu noble/main amd64 Packages
  $ apt-cache policy xwayland
  xwayland:
    Installed: 2:23.2.6-1ubuntu0.5
    Candidate: 2:23.2.6-1ubuntu0.5
    Version table:
   *** 2:23.2.6-1ubuntu0.5 500
          500 http://archive.ubuntu.com/ubuntu noble-updates/main amd64 Packages
          100 /var/lib/dpkg/status
       2:23.2.6-1ubuntu0.4 500
          500 http://security.ubuntu.com/ubuntu noble-security/main amd64 
Packages
       2:23.2.6-1 500
          500 http://archive.ubuntu.com/ubuntu noble/main amd64 Packages

  ---

  So long and thanks for all the adjectival animals!
  --- 
  ProblemType: Bug
  ApportVersion: 2.28.1-0ubuntu3.7
  Architecture: amd64
  CasperMD5CheckResult: pass
  CurrentDesktop: ubuntu:GNOME
  DisplayManager: gdm3
  DistroRelease: Ubuntu 24.04
  InstallationDate: Installed on 2024-10-13 (240 days ago)
  InstallationMedia: Ubuntu 24.04.1 LTS "Noble Numbat" - Release amd64 
(20240827.1)
  Package: gnome-shell 46.0-0ubuntu6~24.04.9
  PackageArchitecture: amd64
  ProcEnviron:
   LANG=en_US.UTF-8
   PATH=(custom, no user)
   SHELL=/bin/bash
   TERM=xterm-256color
   XDG_RUNTIME_DIR=<set>
  ProcVersionSignature: Ubuntu 6.11.0-26.26~24.04.1-generic 6.11.11
  RelatedPackageVersions: mutter-common 46.2-1ubuntu0.24.04.8
  Tags: noble wayland-session
  Uname: Linux 6.11.0-26-generic x86_64
  UpgradeStatus: No upgrade log present (probably fresh install)
  UserGroups: adm cdrom dip lpadmin plugdev sudo users
  _MarkForUpload: True

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