Wrong application (with window "Always OnTop") takes focus after closing a dialog

[Chris Schmidt]

Ubuntu 12.04

Steps to reproduce:

1) start two programs, e.g. gnome-terminal and nautilus
2) set one of the two windows to "Always On Top"
3) switch to the other application and open a dialog there.
4) close the dialog
5) Now the application with the setting "Always On Top" has focus instead of the other application

Several times I closed the wrong application because of this or started the wrong action in the wrong application (I often use keyboard shortcuts instead of using the mouse), which can be pretty annoying or even result in data loss.

In order to exclude any side effect of my current installed system I tested this also with an unmodified "Ubuntu 12.04 LTS 64 bit" image booted from USB Stick. It is the same there.

Edit: I added the Apport Debug Information from the system booted from USB stick, so it says "No upgrade log present (probably fresh install)", but the error is the same with my current system, which is up-to-date.

This is my first bug report to Ubuntu and I am not sure if you need more information?
---
ApportVersion: 2.0.1-0ubuntu5
Architecture: amd64
CasperVersion: 1.315
CompizPlugins: [core,composite,opengl,compiztoolbox,decor,vpswitch,snap,mousepoll,resize,place,move,wall,grid,regex,imgpng,session,gnomecompat,animation,fade,unitymtgrabhandles,workarounds,scale,expo,ezoom,unityshell]
DistroCodename: precise
DistroRelease: Ubuntu 12.04
DistroVariant: ubuntu
LiveMediaBuild: Ubuntu 12.04 LTS "Precise Pangolin" - Release amd64 (20120425)
Package: unity 5.10.0-0ubuntu6
PackageArchitecture: amd64
ProcEnviron:
 TERM=xterm
 PATH=(custom, no user)
 LANG=en_US.UTF-8
 SHELL=/bin/bash
ProcVersionSignature: Ubuntu 3.2.0-23.36-generic 3.2.14
Tags: precise precise precise ubuntu
Uname: Linux 3.2.0-23-generic x86_64
UnreportableReason: Please work this issue through technical support channels first.
UpgradeStatus: No upgrade log present (probably fresh install)
UserGroups: adm cdrom dip lpadmin plugdev sambashare sudo

[Chris Schmidt (nadt)]

apport information

[Chris Schmidt (nadt)]

apport information

[Launchpad Janitor (janitor)]

Status changed to 'Confirmed' because the bug affects multiple users.

[Adam Zochowski (adam-zochowski)]

This also affects Ubuntu 12.10

[Alex Baggott (alex-baggott)]

As part of the big bug review for 16.04 LTS, I have tested this on 15.10 and the bug is still there.