It means EFT (presently) will issue you with a FAA IR, after which you have to undergo a conversion procedure in a JAA state (this means Spain, UK, France and so on) This is quite clear form their website.
No US-based school is approved (by the CAA) to conduct JAR IR courses. See
Standards Document 31
I think it has something to do with the examiner requirement so would be very surprised if another JAA state took a different line.