Switching back to nouveau seemed to fix the issue.

Start-Date: 2015-10-23  09:51:43
Commandline: aptdaemon role='role-commit-packages' sender=':1.8016'
Install: linux-generic:amd64 (4.2.0.16.18)
Remove: nvidia-352:amd64 (352.41-0ubuntu1)
End-Date: 2015-10-23  09:51:58

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You received this bug notification because you are a member of Ubuntu
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Ubuntu.
https://bugs.launchpad.net/bugs/1506169

Title:
  fresh install - linux-headers-generic linux-image-generic python-
  notify thermald can be auto removed

Status in software-properties package in Ubuntu:
  New

Bug description:
  Reproduction Steps (works on Livecd, check that linux-generic is installed 
before testing):
  1.  Open Drivers applet - Install nvidia-352 driver.
  2.  tail /var/log/apt/* and note that it also removed the linux-generic 
package.
  3.  Run sudo apt-get upgrade and note that it now mentions that that 
linux-headers/image-generic are auto-removable.

  ProblemType: Bug
  DistroRelease: Ubuntu 15.10
  Package: ubiquity (not installed)
  ProcVersionSignature: Ubuntu 4.2.0-16.19-generic 4.2.3
  Uname: Linux 4.2.0-16-generic x86_64
  NonfreeKernelModules: nvidia
  ApportVersion: 2.19.1-0ubuntu2
  Architecture: amd64
  Date: Wed Oct 14 14:06:29 2015
  InstallCmdLine: file=/cdrom/preseed/ubuntu.seed boot=casper 
initrd=/casper/initrd.lz quiet splash ---
  InstallationDate: Installed on 2015-10-13 (1 days ago)
  InstallationMedia: Ubuntu 15.10 "Wily Werewolf" - Alpha amd64 (20151013)
  ProcEnviron:
   LANGUAGE=en_US
   TERM=xterm-256color
   PATH=(custom, no user)
   LANG=en_US.UTF-8
   SHELL=/bin/bash
  SourcePackage: ubiquity
  UpgradeStatus: No upgrade log present (probably fresh install)

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