When running ausearch against a single file with the --checkpoint option, the file's device number and inode are not recorded in the resultant checkpoint file.

That is for the most recent released audit package
[root@auditdtest audit-userspace]# rpm -q audit
audit-3.0-0.5.20181218gitbdb72c0.fc29.x86_64

We see the error via
[root@auditdtest audit-userspace]# rm -f /tmp/checkpoint.txt; ausearch --input /var/log/audit/audit.log.2 --checkpoint /tmp/checkpoint.txt > /dev/null; cat /tmp/checkpoint.txt
dev=0x0
inode=0
output=auditdtest.auditd.test.dom 1545477871.508:116403 0x514

Which is incorrect. The following is correct.
[root@auditdtest audit-userspace]# rm -f /tmp/checkpoint.txt;  ./src/.libs/ausearch --input /var/log/audit/audit.log.2 --checkpoint /tmp/checkpoint.txt > /dev/null; cat /tmp/checkpoint.txt
dev=0xFD00
inode=25326469
output=auditdtest.auditd.test.dom 1545477871.508:116403 0x514
[root@auditdtest audit-userspace]# 

A Pull Request with the fix has been submitted on github - https://github.com/linux-audit/audit-userspace/pull/77

Regards
Burn