Unity/Launcher Z Order errors.

[Biatu]

I have been noticing issues with windows being hidden when switching between windows. For example, When performing a File operation, the File Operations Dialog will disappear, and will not be accessible again through the launcher, or the window that called the dialog. The only way to get back to the dialog is to minimize all blocking windows.

ProblemType: Bug
DistroRelease: Ubuntu 16.04
Package: xorg 1:7.7+13ubuntu3
ProcVersionSignature: Ubuntu 4.4.0-24.43-generic 4.4.10
Uname: Linux 4.4.0-24-generic x86_64
.tmp.unity_support_test.0:

ApportVersion: 2.20.1-0ubuntu2.1
Architecture: amd64
BootLog:

CompizPlugins: No value set for `/apps/compiz-1/general/screen0/options/active_plugins'
CompositorRunning: compiz
CompositorUnredirectDriverBlacklist: '(nouveau|Intel).*Mesa 8.0'
CompositorUnredirectFSW: true
CurrentDesktop: Unity
Date: Tue Jun 21 22:09:11 2016
DistUpgraded: Fresh install
DistroCodename: xenial
DistroVariant: ubuntu
DkmsStatus: vboxhost, 5.0.22, 4.4.0-24-generic, x86_64: installed
ExtraDebuggingInterest: Yes, if not too technical
GraphicsCard:
 Intel Corporation 2nd Generation Core Processor Family Integrated Graphics Controller [8086:0126] (rev 09) (prog-if 00 [VGA controller])
   Subsystem: Fujitsu Limited. 2nd Generation Core Processor Family Integrated Graphics Controller [10cf:15f5]
InstallationDate: Installed on 2016-06-14 (7 days ago)
InstallationMedia: Ubuntu 16.04 LTS "Xenial Xerus" - Release amd64 (20160420.1)
MachineType: FUJITSU LIFEBOOK T901
ProcEnviron:
 LANGUAGE=en_US
 PATH=(custom, no user)
 XDG_RUNTIME_DIR=<set>
 LANG=en_US.UTF-8
 SHELL=/bin/bash
ProcKernelCmdLine: BOOT_IMAGE=/boot/vmlinuz-4.4.0-24-generic root=UUID=270675e2-6b43-4607-95e4-a9036be2e5b4 ro quiet splash vt.handoff=7
SourcePackage: xorg
Symptom: display
UpgradeStatus: No upgrade log present (probably fresh install)
dmi.bios.date: 06/19/2012
dmi.bios.vendor: FUJITSU // Phoenix Technologies Ltd.
dmi.bios.version: Version 1.16
dmi.board.name: FJNB228
dmi.board.vendor: FUJITSU
dmi.chassis.type: 10
dmi.chassis.vendor: AOL433E312BB2002
dmi.modalias: dmi:bvnFUJITSU//PhoenixTechnologiesLtd.:bvrVersion1.16:bd06/19/2012:svnFUJITSU:pnLIFEBOOKT901:pvr:rvnFUJITSU:rnFJNB228:rvr:cvnAOL433E312BB2002:ct10:cvr:
dmi.product.name: LIFEBOOK T901
dmi.sys.vendor: FUJITSU
version.compiz: compiz 1:0.9.12.2+16.04.20160526-0ubuntu1
version.ia32-libs: ia32-libs N/A
version.libdrm2: libdrm2 2.4.67-1ubuntu0.16.04.1
version.libgl1-mesa-dri: libgl1-mesa-dri 11.2.0-1ubuntu2
version.libgl1-mesa-dri-experimental: libgl1-mesa-dri-experimental N/A
version.libgl1-mesa-glx: libgl1-mesa-glx 11.2.0-1ubuntu2
version.xserver-xorg-core: xserver-xorg-core 2:1.18.3-1ubuntu2.2
version.xserver-xorg-input-evdev: xserver-xorg-input-evdev 1:2.10.1-1ubuntu2
version.xserver-xorg-video-ati: xserver-xorg-video-ati 1:7.7.0-1
version.xserver-xorg-video-intel: xserver-xorg-video-intel 2:2.99.917+git20160325-1ubuntu1
version.xserver-xorg-video-nouveau: xserver-xorg-video-nouveau 1:1.0.12-1build2
xserver.bootTime: Tue Jun 21 15:22:51 2016
xserver.configfile: default
xserver.errors:
 Wacom ISDv4 EC Pen stylus: Invalid type 'cursor' for this device.
 Wacom ISDv4 EC Pen stylus: Invalid type 'touch' for this device.
 Wacom ISDv4 EC Pen stylus: Invalid type 'pad' for this device.
xserver.logfile: /var/log/Xorg.0.log
xserver.outputs:
 product id 2600
 vendor BOE
xserver.version: 2:1.18.3-1ubuntu2.2