I have manually installed
linux-headers-4.4.0-9-generic_4.4.0-9.24_amd64.deb
linux-image-4.4.0-9-generic_4.4.0-9.24_amd64.deb
linux-image-extra-4.4.0-9-generic_4.4.0-9.24_amd64.deb

and booted into 4.4.0-9 kernel.

Unfortunately the misbehaviour was still there.  so it is possible the
kernel is not the problem here.

Which binaries for the xorg should I try?

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https://bugs.launchpad.net/bugs/1556459

Title:
  [Lenovo ThinkPad W530] Regression: cannot set up 3 display
  configuration any more (Optimus)

Status in xorg package in Ubuntu:
  Incomplete

Bug description:
  I cannot set up the third monitor any more (it was working beginning
  of March 2016 with Ubuntu 16.04).

  The configuration with NVIDIA Optimus starts with builtin display (of
  Thinkpad W530) and one of (3K) monitors, the second monitor is
  detected, but not used.

  The unity configuration tool shows me two message boxes:

  "The selected configuration for displays could not be applied
  could not set the configuration for CRTC 64"

  and

  "Failed to apply configuration: %s

  
GDBus.Error:org.gtk.GDBus.UnmappedGError.Quark._gsd_2drr_2derror_2dquark.Code2: 
could not set the configuration for CRTC 64
  "

  The first one I have seen at boot time on login screen (with 3
  displays) previously, the second one is new.

  The third monitor works if Optimus gets disabled in  BIOS and the
  machine runs with Nvidia only

  ProblemType: Bug
  DistroRelease: Ubuntu 16.04
  Package: xorg 1:7.7+13ubuntu3
  ProcVersionSignature: Ubuntu 4.4.0-12.28-generic 4.4.4
  Uname: Linux 4.4.0-12-generic x86_64
  .tmp.unity.support.test.0:
   
  ApportVersion: 2.20-0ubuntu3
  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
  Date: Sat Mar 12 18:44:54 2016
  DistUpgraded: Fresh install
  DistroCodename: xenial
  DistroVariant: ubuntu
  DkmsStatus:
   virtualbox, 5.0.16, 4.4.0-10-generic, x86_64: installed
   virtualbox, 5.0.16, 4.4.0-11-generic, x86_64: installed
   virtualbox, 5.0.16, 4.4.0-12-generic, x86_64: installed
  EcryptfsInUse: Yes
  ExtraDebuggingInterest: Yes, including running git bisection searches
  GraphicsCard:
   Intel Corporation 3rd Gen Core processor Graphics Controller [8086:0166] 
(rev 09) (prog-if 00 [VGA controller])
     Subsystem: Lenovo 3rd Gen Core processor Graphics Controller [17aa:21f5]
   NVIDIA Corporation GK107GLM [Quadro K2000M] [10de:0ffb] (rev a1) (prog-if 00 
[VGA controller])
     Subsystem: Lenovo GK107GLM [Quadro K2000M] [17aa:21f5]
  InstallationDate: Installed on 2016-02-25 (15 days ago)
  InstallationMedia: Ubuntu 16.04 LTS "Xenial Xerus" - Alpha amd64 (20160225)
  MachineType: LENOVO 2447MU0
  ProcKernelCmdLine: BOOT_IMAGE=/vmlinuz-4.4.0-12-generic 
root=UUID=c01ceec8-4b0c-447f-af8f-3e9c4ae90e15 ro rootflags=subvol=@ quiet 
splash
  SourcePackage: xorg
  Symptom: display
  UpgradeStatus: No upgrade log present (probably fresh install)
  dmi.bios.date: 09/18/2015
  dmi.bios.vendor: LENOVO
  dmi.bios.version: G5ETA3WW (2.63 )
  dmi.board.asset.tag: Not Available
  dmi.board.name: 2447MU0
  dmi.board.vendor: LENOVO
  dmi.board.version: 0B98401 WIN
  dmi.chassis.asset.tag: No Asset Information
  dmi.chassis.type: 10
  dmi.chassis.vendor: LENOVO
  dmi.chassis.version: Not Available
  dmi.modalias: 
dmi:bvnLENOVO:bvrG5ETA3WW(2.63):bd09/18/2015:svnLENOVO:pn2447MU0:pvrThinkPadW530:rvnLENOVO:rn2447MU0:rvr0B98401WIN:cvnLENOVO:ct10:cvrNotAvailable:
  dmi.product.name: 2447MU0
  dmi.product.version: ThinkPad W530
  dmi.sys.vendor: LENOVO
  version.compiz: compiz 1:0.9.12.2+16.04.20160209-0ubuntu1
  version.ia32-libs: ia32-libs N/A
  version.libdrm2: libdrm2 2.4.67-1
  version.libgl1-mesa-dri: libgl1-mesa-dri 11.1.2-1ubuntu1
  version.libgl1-mesa-dri-experimental: libgl1-mesa-dri-experimental N/A
  version.libgl1-mesa-glx: libgl1-mesa-glx 11.1.2-1ubuntu1
  version.xserver-xorg-core: xserver-xorg-core 2:1.18.1-1ubuntu4
  version.xserver-xorg-input-evdev: xserver-xorg-input-evdev 1:2.10.1-1ubuntu2
  version.xserver-xorg-video-ati: xserver-xorg-video-ati 1:7.6.1-1ubuntu2
  version.xserver-xorg-video-intel: xserver-xorg-video-intel 
2:2.99.917+git20160218-1ubuntu3
  version.xserver-xorg-video-nouveau: xserver-xorg-video-nouveau 
1:1.0.12-1build2
  xserver.bootTime: Sat Mar 12 18:30:45 2016
  xserver.configfile: default
  xserver.logfile: /var/log/Xorg.0.log
  xserver.version: 2:1.18.1-1ubuntu4

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