I have exactly the same problem on Ubuntu 16.10

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https://bugs.launchpad.net/bugs/1625773

Title:
  Segfault when using -w / --window to screenshot current window.

Status in gnome-screenshot package in Ubuntu:
  New

Bug description:
  The gnome-screenshot program segfaults every time, when I try to
  capture the current window with `gnome-screenshot -w`. Taking an area
  screenshot with `gnome-screenshot -a`, and taking a full desktop
  screenshot with `gnome-screenshot` works, but taking a current window
  screenshot with `gnome-screenshot -w` segfaults every time. Adding
  delay with `-d <delay>` and capturing pointer or not with `-p` has no
  effect.

  This may be the same bug as

  https://bugs.launchpad.net/ubuntu/+source/gnome-screenshot/+bug/81817

  although that one is closed long ago. The relationship is that I'm
  using gnome-screenshot inside the XMonad window manager, a non-
  standard window manager.


  Stack trace:

  $ gdb gnome-screenshot                                                        
 
  GNU gdb (Ubuntu 7.11.1-0ubuntu1~16.04) 7.11.1
  [...]
  Reading symbols from gnome-screenshot...(no debugging symbols found)...done.
  (gdb) core-file core 
  warning: core file may not match specified executable file.
  [New LWP 25469]
  [New LWP 25472]
  [New LWP 25470]
  [New LWP 25471]
  [Thread debugging using libthread_db enabled]
  Using host libthread_db library "/lib/x86_64-linux-gnu/libthread_db.so.1".
  Core was generated by `gnome-screenshot -d 3 -w -p'.
  Program terminated with signal SIGSEGV, Segmentation fault.
  #0  0x000000000040dbb5 in ?? ()
  [Current thread is 1 (Thread 0x7f3b4c841a40 (LWP 25469))]
  (gdb) where
  #0  0x000000000040dbb5 in ?? ()
  #1  0x000000000040e1ea in ?? ()
  #2  0x0000000000408bc1 in ?? ()
  #3  0x0000000000408df9 in ?? ()
  #4  0x00007f3b4a5afac3 in ?? () from /lib/x86_64-linux-gnu/libglib-2.0.so.0
  #5  0x00007f3b4a5af05a in g_main_context_dispatch ()
     from /lib/x86_64-linux-gnu/libglib-2.0.so.0
  #6  0x00007f3b4a5af400 in ?? () from /lib/x86_64-linux-gnu/libglib-2.0.so.0
  #7  0x00007f3b4a5af4ac in g_main_context_iteration ()
     from /lib/x86_64-linux-gnu/libglib-2.0.so.0
  #8  0x00007f3b4ab76cdd in g_application_run ()
     from /usr/lib/x86_64-linux-gnu/libgio-2.0.so.0
  #9  0x0000000000408385 in ?? ()
  #10 0x00007f3b49a84830 in __libc_start_main (main=0x408320, argc=5, 
      argv=0x7fff78989e68, init=<optimized out>, fini=<optimized out>, 
      rtld_fini=<optimized out>, stack_end=0x7fff78989e58)
      at ../csu/libc-start.c:291
  #11 0x00000000004083c9 in ?? ()


  System information:

  $ lsb_release -rd
  Description:    Ubuntu 16.04.1 LTS
  Release:        16.04

  $ apt-cache policy gnome-screenshot
  gnome-screenshot:
    Installed: 3.18.0-1ubuntu2
    Candidate: 3.18.0-1ubuntu2
    Version table:
   *** 3.18.0-1ubuntu2 500
          500 http://vault.galois.com/ubuntu xenial/main amd64 Packages
          100 /var/lib/dpkg/status

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