QR have far fewer A380s in their fleet and can replace them relatively easily with other, more suitable types. With EK, they make up nearly half of the fleet and the airline has no other option once the B777s are fully committed.
It comes down to a choice between cancelling services or flying half empty A380s. A hub airline needs to offer reasonable connecting times, so frequency needs to be maintained. Consolidating flights to increase load factors can only be done to a limited extent, as once the waiting time in DXB goes much beyond about four hours pax will start looking elsewhere.
The super jumbo will be a drag on EK for the foreseeable future however it could still make an overall profit with the B777s and certain A380 sectors.