I'm at the TBM Conference and stopped by the Apptio Support station. I repro'd the problem to the Apptians, too!
The error notices can safely be regarded as a warning rather than a genuine error. Data is still loaded. And, check-ins can be achieved without issue.
@Chris Rhoades, @Sean Ingalls, or @Mark Nealey can provide some additional insight and context on this topic.