Get ride of above two files and move them to your home folder for backup:
sudo mv /etc/dnsmasq.d/libvirt-bin ~
sudo mv /etc/dnsmasq.d/network-manager ~
Restart to apply:
sudo service pihole-FTL restart
And check netstat again if listening now:
sudo netstat -nltup | grep 'Proto\|:53 \|:67 \|:80 \|:471[1-8]'
Is network-manager active ?
sudo service network-manager status
Thats another network manager that can mangle your IP setup!
EDIT:typo