I was able to recreate this when upgrading a Ubuntu 16.04 chroot to
Ubuntu 18.04 by editing /etc/apt/sources.list from xenial to bionic and
running 'apt-get dist-upgrade'.

Setting up ca-certificates (20180409) ...
Updating certificates in /etc/ssl/certs...
rehash: skipping duplicate certificate in Go_Daddy_Class_2_CA.pem
dpkg: error processing package ca-certificates (--configure):
 installed ca-certificates package post-installation script subprocess returned 
error exit status 1

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https://bugs.launchpad.net/bugs/1764848

Title:
  Upgrade to ca-certificates to 20180409 causes ca-certificates.crt to
  be removed if duplicate certs found

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