My money is on replacing the the current 744F's with more economical 748F's.
They can then "dispose" their contract with Atlas, as the 777 drivers can undergo a small conversion school and drive them. Since the 777-200LRF has been ordered, freight for them won't be a problem.
Appears the limited airports the 380F can use is of no use to a boutique cargo mob like EK, after all, there is no small fee involved in financing the infrastructure for the 380F - especially only two of them!