working as tested with VM

check.bash

@@ -42,7 +42,8 @@ function copy_config() {
   tmpdir=$(mktemp -d)
   echo $tmpdir
   cp -r /etc/ $tmpdir
-  apt list --installed | awk -F/ '{print $1}' > $tmpdir/installed_packages
+  #apt list --installed | awk -F/ '{print $1}' > $tmpdir/installed_packages
+  dpkg --get-selections > $tmpdir/installed_packages
   # From https://wiki.debian.org/AptCLI#apt-file
   # dpkg --get-selections >/backup/package-selections
   # apt install $(cat /backup/package-selections | awk '{print $1}')

restore.bash

@@ -1,5 +1,7 @@
 #!/bin/bash
 
+set -x
+
 function cprint () { 
     color="$1"
     shift
@@ -32,13 +34,13 @@ function restore_config() {
   aptpkgfile="installed_packages"
 
   # restore apt first
-  cp -R apt/ /etc
+  cp -R etc/apt/ /etc
   apt update
   apt upgrade -y
   # now the programs installed via apt before we restore configs
   apt install -y $(cat $aptpkgfile | awk '{print $1}')
   # we should be set app wise now the configs
-  cp -R . /etc 
+  cp -R etc/ /etc 
 
   
   # most files in here with me are from /etc