I recently had the same problem when importing about 3,500 NEF, shot with a Nikon D700 and imported into LR 5.5 on Power Mac. Out of the 3,500 photos there were about 40 that had an end-of-file error. Fortunately, I had the original photos still on the card, and using the same reader but a different USB port, I was able to import the previously defective files without any errors.
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