I've just seen this on Ubuntu 16.04 on an EeePC and in one start up
configuration it always happens and autologin always fails.

It seems to be highly dependent on what else is happening as lightdm is
starting. When the problem occurs looking at the lightdm log shows that
it is trying to log using a normal PAM lightdm session rather than an
autologin PAM session. This leads to failure because the account being
authenticated has a password and no password is being passed to PAM and
the user is intentionally absent from the nopasswdlogin group.

Attaching /etc/lightdm/lilghtdm.conf, /var/log/lightdm/lightdm.log and
PAM's /var/log/auth.log .

** Attachment added: "lightdm.conf"
   
https://bugs.launchpad.net/ubuntu/+source/lightdm/+bug/1250875/+attachment/4645855/+files/lightdm.conf

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https://bugs.launchpad.net/bugs/1250875

Title:
  Lightdm sometimes fails to auto login

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