Public bug reported:

After my system has booted, many modules like
/lib/modules/5.4.0-1065-azure/kernel/net/ipv4/netfilter/ip_tables.ko
are not available.

This is because the copymods system has hidden them with its mount on top:
mount | grep copymods
copymods on /lib/modules type tmpfs (rw,relatime)

So this system doesn't seem to be working as it should...

If I do:
sudo apt install --reinstall linux-modules-extra-5.4.0-1065-azure 
linux-modules-5.4.0-1065-azure

they reappear in the tmpfs but on the next boot they are gone again.

This seems to have happened to others in the past:
https://unix.stackexchange.com/questions/405146/removed-lib-modules-folder-after-every-reboot

ProblemType: Bug
DistroRelease: Ubuntu 18.04
Package: cloud-initramfs-copymods 0.40ubuntu1.1
ProcVersionSignature: Ubuntu 5.4.0-1065.68~18.04.1-azure 5.4.157
Uname: Linux 5.4.0-1065-azure x86_64
ApportVersion: 2.20.9-0ubuntu7.27
Architecture: amd64
Date: Tue Jan 18 15:02:34 2022
PackageArchitecture: all
SourcePackage: cloud-initramfs-tools
UpgradeStatus: No upgrade log present (probably fresh install)

** Affects: cloud-initramfs-tools (Ubuntu)
     Importance: Undecided
         Status: New


** Tags: amd64 apport-bug bionic uec-images

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https://bugs.launchpad.net/bugs/1958260

Title:
  cloud-initramfs-copymods hides the full list of modules from the
  system

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