Unity bar creates icons for applications already running

[florin]

2 issues that are probably connected in Ubuntu 16.10, fresh install:

1. I already have Terminal on the bar as a locked application, but when I start Terminal, there is another icon created under it.
2. I have Nautilus running. When I go in Nautilus to another mounted partition, I have another Nautilus icon created in the bar.

See the attached screen capture with these bugs.

ProblemType: Bug
DistroRelease: Ubuntu 16.10
Package: unity 7.5.0+16.10.20160906.1-0ubuntu1
ProcVersionSignature: Ubuntu 4.8.0-26.28-generic 4.8.0
Uname: Linux 4.8.0-26-generic x86_64
.tmp.unity_support_test.0:

ApportVersion: 2.20.3-0ubuntu8
Architecture: amd64
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: Thu Nov 3 23:03:00 2016
DistUpgraded: Fresh install
DistroCodename: yakkety
DistroVariant: ubuntu
GraphicsCard:
 Intel Corporation HD Graphics 530 [8086:191b] (rev 06) (prog-if 00 [VGA controller])
   Subsystem: Toshiba America Info Systems HD Graphics 530 [1179:f840]
GsettingsChanges:
 b'org.compiz.core' b'outputs' b"['1920x1080+0+0']"
 b'org.compiz.core' b'active-plugins' b"['core', 'composite', 'opengl', 'commands', 'snap', 'move', 'grid', 'wall', 'compiztoolbox', 'place', 'vpswitch', 'copytex', 'regex', 'animation', 'mousepoll', 'imgpng', 'resize', 'session', 'workarounds', 'fade', 'expo', 'unitymtgrabhandles', 'scale', 'ezoom', 'unityshell']"
 b'com.canonical.Unity' b'minimize-count' b'15'
 b'org.gnome.desktop.interface' b'gtk-im-module' b"'gtk-im-context-simple'"
 b'org.gnome.desktop.interface' b'scaling-factor' b'uint32 1'
Lsusb:
 Bus 002 Device 001: ID 1d6b:0003 Linux Foundation 3.0 root hub
 Bus 001 Device 002: ID 13d3:5652 IMC Networks
 Bus 001 Device 001: ID 1d6b:0002 Linux Foundation 2.0 root hub
MachineType: TOSHIBA SATELLITE P50-C
ProcKernelCmdLine: BOOT_IMAGE=/boot/vmlinuz-4.8.0-26-generic root=UUID=0dab0e78-b624-4881-a1af-9c49dc1746c1 ro splash quiet vt.handoff=7
SourcePackage: unity
UpgradeStatus: No upgrade log present (probably fresh install)
dmi.bios.date: 10/08/2015
dmi.bios.vendor: INSYDE Corp.
dmi.bios.version: 1.20
dmi.board.name: 06F4
dmi.board.vendor: FF50
dmi.board.version: Type2 - Board Version
dmi.chassis.asset.tag: No Asset Tag
dmi.chassis.type: 10
dmi.chassis.vendor: OEM Chassis ManuFacturer
dmi.chassis.version: OEM Chassis Version
dmi.modalias: dmi:bvnINSYDECorp.:bvr1.20:bd10/08/2015:svnTOSHIBA:pnSATELLITEP50-C:pvrPSPUFE-001009G6:rvnFF50:rn06F4:rvrType2-BoardVersion:cvnOEMChassisManuFacturer:ct10:cvrOEMChassisVersion:
dmi.product.name: SATELLITE P50-C
dmi.product.version: PSPUFE-001009G6
dmi.sys.vendor: TOSHIBA
version.compiz: compiz 1:0.9.13.0+16.10.20160818.2-0ubuntu2
version.ia32-libs: ia32-libs N/A
version.libdrm2: libdrm2 2.4.70-1
version.libgl1-mesa-dri: libgl1-mesa-dri 12.0.3-1ubuntu2
version.libgl1-mesa-dri-experimental: libgl1-mesa-dri-experimental N/A
version.libgl1-mesa-glx: libgl1-mesa-glx 12.0.3-1ubuntu2
version.xserver-xorg-core: xserver-xorg-core 2:1.18.4-1ubuntu6
version.xserver-xorg-input-evdev: xserver-xorg-input-evdev 1:2.10.2-1ubuntu1
version.xserver-xorg-video-ati: xserver-xorg-video-ati 1:7.7.1-1
version.xserver-xorg-video-intel: xserver-xorg-video-intel 2:2.99.917+git20160706-1ubuntu1
version.xserver-xorg-video-nouveau: xserver-xorg-video-nouveau 1:1.0.12-2
xserver.bootTime: Thu Nov 3 21:02:31 2016
xserver.configfile: default
xserver.errors:
 Failed to load module "nvidia" (module does not exist, 0)
 Failed to load module "nvidia" (module does not exist, 0)
 Unknown chipset: NV117
xserver.logfile: /var/log/Xorg.0.log
xserver.version: 2:1.18.4-1ubuntu6
xserver.video_driver: modeset