In 1862, at the age of 87, he had reportedly acquired some illness. In October, his condition deteriorated. He was "spoon-fed on broth" but he found that difficult too by 3 November. On 6 November, the British Commissioner H.N. Davies recorded that Zafar "is evidently sinking from pure despitude and paralysis in the region of his throat". To prepare for his death Davies commanded for the collection of lime and bricks and a spot was selected at the "back of Zafar's enclosure" for his burial. Zafar died on Friday, 7 November 1862 at 5 am. Zafar was buried at 4 pm near the Shwe Degon Pagoda at 6 Ziwaka Road, near the intersection with Shwe Degon Pagoda road, Yangon. The shrine of Bahadur Shah Zafar Dargah was built there after recovery of its tomb on 16 February 1991. Davies commenting on Zafar, described his life to be "very uncertain".

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