The flight is conveying delegation of Israeli and US officials in order to put final touches on a controversial pact establishing open relations.
The flight was allowed to cross Saudi Arabian airspace, normally blocked to Israeli air traffic.
The UAE became only the third Arab country in the Middle East to recognise Israel since its founding in 1948.
On Saturday the UAE repealed a law boycotting Israel which had been in place since 1972, and earlier this month the two countries opened direct telephone services for the first time.
The agreement to normalise relations – brokered by the US – was made public in a surprise announcement on 13 August.
Flight LY971 – numbered to represent the UAE’s international dialling code – carried delegates including Donald Trump’s son-in-law and senior adviser Jared Kushner and Israel’s National Security Adviser Meir Ben-Shabbat.
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