The Guardian is reporting that Mkhitaryan is likely to have to miss the match due to safety issues.
When Arsenal played in Azerbaijan in their opening group game the Armenian midfielder was omitted because of the conflict between the countries.
And because there are no diplomatic relations between Azerbaijan and Armenia, Arsenal are disappointed they may be prevented from taking one of their players to the final, according to the same story.
The report also says that both Arsenal and Mkhitaryan are “deeply disappointed” by the situation.
The story says that Arsenal will make a final decision about Mkhitaryan by early next week at the latest, but they are not hopeful of a positive outcome.
It comes after Arsenal released a statement complaining to Uefa about the fact that both clubs have only been allocated 6,000 tickets for their travelling fans.
The Gunners also complained about the “extreme” travel challenges facing fans who want to travel to the game on 29 May in Baku.
Arsenal will be hoping to win the trophy as they bid to book their place in the Champions League for next season.
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