Civil Lines (Circle Officer) of Aligarh, Anil Samania said Khan was brought here late Friday evening and was produced before the remand magistrate who remanded him to judicial custody.
Earlier, the doctor was sent to Aligarh jail but within an hour, he was moved to Mathura jail, said the officials.
On Thursday, the Uttar Pradesh cops had obtained transit remand for Kafeel Khan, who was arrested in Mumbai for allegedly making inflammatory remarks in the protests at Aligarh Muslim University against CAA.
Special Task Force of UP, on Wednesday, had arrested Khan in a joint operation with Mumabi Police, when he visited the city to attend a protest against contentious newly amended Citizenship Act.
According to the STF, Khan was arrested in connection with a case registered at the Civil Lines police station in Aligarh, booked under section 153-A of the Indian Penal Code for promoting enmity between groups.
Khan is accused of imparting inflammatory comments during a protest near Bab-e-Syed Gate outside AMU in front of more than 600 students protesting against the new citizenship lae on December 12.
Khan has also been alleged by an official that he has made objectionable comments against Union Home Minister Amit Shah. Gorakhpur doctor was taken to Mumbai's Sahar police station after arrest.
Whereas, in Gorakhpur, his brother Adil Khan has alleged on Thursday that the doctor was arrested to give the ruling BJP an advantage in the Delhi Assembly polls which are to be held on February 8.
Earlier, the doctor was arrested for his alleged role in the deaths of over 60 children in one week at the BRD Medical College, Gorakhpur in August 2017. The cause for the deaths of children was said to be short supply of oxygen at the children's ward.
Following an outrage over the Gorakhpur deaths, Khan was suspended amd arrested, with the UP government claiming that he had failed to take prompt action or warn his superiors about the impending crisis.
However, about two years later in a state government's investigation, Khan was cleared of all major charges,telling him to seek an apology from the Yogi Adityanath government.
In Gorakhpur, his brother Adil Khan has questioned Wednesday's arrest. "It is clear that the motive behind the arrest was political gain during the Delhi Assembly election," Adil Khan claimed.
"It is alleged that my brother has no faith in the Constitution, which is wrong as his speech is available on social media and nowhere has he said this. He is falsely accused and wrongly arrested," said Adil.