Please explain exactly what you see when Lightroom "will not recognize" your raw files. Or show us a screen capture. If there is an error message, please quote the complete unedited exact word-for-word verbatim error message.
What camera took these RAW files?
What version of Lightroom?
The photos are shot with a Canon 6D I've never had and issue before it just happened one day LR version 5.3 Camera Raw version 8.3
The last two errors indicate that you do not have WRITE permission to the directory where the photos are supposed to be copied into (which could happen because the destination directory changed accidentally)
Change your permissions to WRITE for that exact folder (or if the destination directory changed accidentally, change it back to whatever it was before)