Georgia had lost the two previous games played since arriving in England but thought they had stopped the rot as a Muraz Giorgadze try had them leading 10-6 heading into the final minutes.
However, Amanaki Lelei Mafu broke through to score a converted try to snatch the win for Japan.
Japan are in pool B in the World Cup and kick off against South Africa on Sept. 19 while Georgia start against Tonga in Pool C on the same day back at Gloucester.
(Reporting by Mitch Phillips, editing by Toby Davis)
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