Biometric are about probabilities, and a poor fingerprint has a higher chance of a false match. Many Afghans have poor fingerprints because of manual labor (masonry work, etc.). Also, a miss is harder than a match, because you have to search every single record. They may have the thresholds set so low that the "best" match pops up, even if it is not a great match. That would explain this kind of false positive for the reporter.
It sounds to me like the system worked - there was a secondary verification of using a photograph, which would have cleared the person who got the false positive.