Just checked 2.72-1 and it doesn't seem to have this problem.
$ cat /etc/dnsmasq.conf | tail -n 2 #conf-file=/etc/dnsmasq.more.conf #conf-dir=/etc/dnsmasq.d $ od -t c /etc/dnsmasq.conf | tail -n 2 0062320 / e t c / d n s m a s q . d \n 0062337
Just checked 2.72-1 and it doesn't seem to have this problem.
$ cat /etc/dnsmasq.conf | tail -n 2 /etc/dnsmasq. more.conf /etc/dnsmasq. d
#conf-file=
#conf-dir=
$ od -t c /etc/dnsmasq.conf | tail -n 2
0062320 / e t c / d n s m a s q . d \n
0062337