Hi,
I am a contributor to the Tails project (
https://tails.boum.org/),
a live system aimed at preserving its users' safety, privacy and
anonymity, focusing on ease of use for non-technical users. To give
you an idea of the impact of the problems I'm asking for help here,
we're talking about a system that is started more than 17,000 times
a day.
We are about to release Tails 2.0 in a week. It will be our first
release based on Debian 8 (Jessie), and more to the point here, our
first release that includes GNOME Shell as the default (and only)
desktop environment.
During the beta and RC phases, many testers reported to us serious
bugs with how icons in the top-right tray are displayed.
Probably relevant is the fact that we include the topIcons extension,
because not all the important status icons have been migrated to more
modern GNOME technologies yet. But not only icons moved by topIcons to
the top-right tray are affected.
Sadly, nobody on our team has the skills to debug this problem,
so we have to kindly call for help.
The symptoms we see are:
 * Widgets in the top-right tray are somewhat narrowed (to their
   arrow, with a dot instead of the expected text); I've seen this
   happen at least for the date/time and the ibus menu icon:
   
https://labs.riseup.net/code/attachments/download/1186/new-session.png
   https://labs.riseup.net/code/attachments/download/1180/1.png
   https://labs.riseup.net/code/attachments/download/1181/2.png
   https://labs.riseup.net/code/attachments/download/1182/3.png
   https://labs.riseup.net/code/attachments/download/1183/4.png
 * The clickable area and the icon of a widget moved by topIcons are
   not at the same place. For example, nothing happens when I click on
   the Florence icon, but Florence appears when I click elsewhere (on
   the left of the OpenPGP Applet). This screenshot shows what is the
   clickable area for Florence at this point:
   
https://labs.riseup.net/code/attachments/download/1173/clickable%20area.png
Enabled extensions:
 * Classic mode extensions:
   apps-menu@??? and
   window-list@???
 * topIcons v28
 * a custom Tails extension called shutdown-helper@???:
   
https://git-tails.immerda.ch/tails/tree/config/chroot_local-includes/usr/share/gnome-shell/extensions/shutdown-helper@tails.boum.org?h=testing
Other possibly relevant information:
 * We run GNOME Shell 3.14.4-1~deb8u1 in Classic mode.
 * The ISO image for Tails 2.0~rc1 can be downloaded from
   
https://tails.boum.org/news/test_2.0-rc1/ — it's a live system, so
   you can try it out in a virtual machine, after dd'ing it to a USB
   stick, or burning it to a DVD.
 * I don't seem to be able to reproduce these bugs with an ISO that
   has the topIcons extension disabled. It seems that a loaded (or
   just slow) system exposes the problem more often than a powerful
   and idling system.
 * I've seen similar bug reports online elsewhere:
   
https://extensions.gnome.org/extension/495/topicons/
   https://www.reddit.com/r/archlinux/comments/2g06t7/icons_disappearing_from_notification_tray_using/
 * In an environment (Spice/QXL/QEMU VM) where I can dynamically
   change the display size & resolution, making the display way bigger
   fixes the bug, and reverting to the initial display size reverts
   back to the problematic initial state.
 * There is one error in the logs that I only see when the bug
   happens:
   gnome-session[2343]: (gnome-shell:2871): GLib-GObject-WARNING **: /build/glib2.0-EvFudu/glib2.0-2.42.1/./gobject/gsignal.c:2579: instance '0x94b20f0' has no handler with id '32170'
   It refers to
   
https://sources.debian.net/src/glib2.0/2.42.1-1/gobject/gsignal.c/?hl=2501#L2579
   When this happens, I also see:
   gnome-session[2003]: (gnome-shell:3042): Gjs-WARNING **: JS ERROR: TypeError: parent is null
   gnome-session[2003]: onTrayIconRemoved@/usr/share/gnome-shell/extensions/topIcons@???@gmail.com/extension.js:115
 * Another piece of logs that we (sometimes) see when the problem happens:
   gnome-session[30034]: (gnome-shell:30263): Gjs-WARNING **: JS ERROR: TypeError: parent is null
   gnome-session[30034]: moveToTop@/usr/share/gnome-shell/extensions/topIcons@???@gmail.com/extension.js:135
   gnome-session[29844]: (gnome-shell:30074): Clutter-WARNING **: Attempting to add actor of type 'ShellTrayIcon' to a container of type 'ShellGenericContainer', but the actor has already a parent of type 'ShellGenericContainer'.
 * The 
https://github.com/wincinderith/topicons fork has changes in
   areas that might be relevant to the problems we see. We've not
   tested it so far.
Is there any information you need from us to debug this problem?
I'm sure those of us who see this problem would be glad to test
patches aimed at fixing it.
Cheers!
-- 
intrigeri