Dr. Know, except for a few Europeans and Australians, EK makes a great deal of its money carrying Indians, Pakistanis, and Asians in general, with or without the so-called first world passports.
Had EK depended on carrying Jews, or other white western folks, they wouldn't make any money.
Now, as per hiring Jewish pilots, this is a non-issue. There are several pilots with Jewish surnames flying for EK. Quoting Tristar above, the Arabs tolerate all other religions (as long as you don't try to talk them out of theirs); but, they have a big bone with the Zionists, the land-takers, the Israelis.