Saudi Arabia's Abdulaziz Mohammed, Musaab Bala of Qatar and Abraham Kipchirchir Rotich of Bahrain, who finished first, second and third, all had their results cancelled.
The drama comes just days after Bahrain's Ruth Jebet was stripped of her steeplechase win as she was about to step onto the victory podium, only to be reinstated the next day.
The Incheon Asiad's official website said Mohammed was disqualified for obstruction, while Bala and Rotich were penalised for breaking lane regulations.
The ruling means Iraq's Adnan Taess Akkar provisionally moves up to take the gold, with Teng Haining of China on silver and Jamal Haraine of Qatar bronze.
But a Saudi official told AFP the team were appealing against the disqualification, saying Mohammed had stumbled innocently and had not impeded the Bahraini.
A Qatar official said their delegation had also protested.
Teenager Jebet's win was taken away because she stumbled and put a foot in the infield, but the ruling was reversed after officials decided she had gained no advantage by the slip.
Speaking to AFP before the disqualification was announced, Mohammed played down the incident.
"There was some touching between me and the Bahraini -- I wanted to move out but the touching stopped me. There was no grabbing (of the shirt)," he said through a translator.
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