Right okay so the setup was this:

On kvm I install fedora on a full qcow2 hdd.
I then repartition it to create some free space as I didn't realise that fedora 
uses lvm by default
In the free space I then install ubuntu

In EFI menu of uefi I now can boot from fedora or from ubuntu

When I look at /boot/EFI I now see separate folders for Fedora and
Ubuntu  each Folder has the similarly named files in for shim etc in
order to boot.

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https://bugs.launchpad.net/bugs/1560973

Title:
  EFI booting Ubuntu image to grub removes existing boot entries and
  makes system unbootable

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