Weird, Here amd64 which is good:
https://buildd.debian.org/status/fetch.php?pkg=conntrack-tools&arch=amd64&ver=1%3A1.4.4%2Bsnapshot20161117-2&stamp=1480672733 Here arm64 which presents the same issue as reported by you: https://buildd.debian.org/status/fetch.php?pkg=conntrack-tools&arch=arm64&ver=1%3A1.4.4%2Bsnapshot20161117-2&stamp=1480672797 automake should take care of generating/updating config_read_yy.h Anyway, I'm preparing 1:1.4.4+snapshot20161117-3 which solves a missing include warning. Just built here this new version in pbuilder and it's just fine.
