Thanks for reporting this issue. It sounds like a kernel issue. Also, it
looks like you are running a custom kernel?

** Also affects: linux (Ubuntu)
   Importance: Undecided
       Status: New

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https://bugs.launchpad.net/bugs/1263140

Title:
  reboot does not terminate at computer shutdown

Status in “linux” package in Ubuntu:
  Incomplete
Status in “upstart” package in Ubuntu:
  New

Bug description:
  Ubuntu 13.10

  Shutdown and rebbot whether via terminal or GUI buttons hangs and does
  not shut off power on my PC.  I have to hold down the power button to
  do full power off,

  ProblemType: Bug
  DistroRelease: Ubuntu 13.10
  Package: upstart 1.10-0ubuntu7
  Uname: Linux 3.12.0-031200-generic x86_64
  NonfreeKernelModules: wl
  ApportVersion: 2.12.5-0ubuntu2.1
  Architecture: amd64
  Date: Thu Dec 19 13:45:25 2013
  ExecutablePath: /sbin/reboot
  InstallationDate: Installed on 2013-10-19 (61 days ago)
  InstallationMedia: Ubuntu 13.10 "Saucy Salamander" - Release amd64 
(20131016.1)
  MarkForUpload: True
  OmitPids: 1130 941 755 11955 732 713 699 12012 819 719 12041 755 11955 732 
713 699 12012 819 719
  ProcCmdline: /sbin/poweroff
  ProcEnviron:
   
  ProcKernelCmdline: BOOT_IMAGE=/boot/vmlinuz-3.12.0-031200-generic 
root=UUID=99ee33d3-3574-42e4-9b82-5f0f954cfc69 ro quiet splash acpi=force 
vt.handoff=7
  SourcePackage: upstart
  Title: reboot does not terminate at computer shutdown
  UpgradeStatus: No upgrade log present (probably fresh install)
  UpstartBugCategory: System
  UpstartRunningSystemVersion: init (upstart 1.10)
  modified.conffile..etc.default.whoopsie: [modified]
  mtime.conffile..etc.default.whoopsie: 2013-10-22T11:31:34.550082

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