Head is set to miss Australia's early matches after breaking his hand in South Africa but was included in place of left-arm spinner Ashton Agar.
Nishanth, who is in his second year of U-19 cricket, was among the host of net bowlers at Pakistan team's disposal after it turned up for training 12 hours.
Shaheen Shah Afridi also lauded the Indians for their warm reception for the Pakistani cricketers.
The team led by skipper Babar Azam flew into the city via Dubai for the first tour to India in seven years.
Pacer Dushmantha Chameera has also been left out of the 15-member squad for the ODI world cup.
The South African players arrived in the Kerala capital on Monday.
The spectators who bought tickets for the game will receive a full refund.
The Pakistan Cricket Board had written to the governing body complaining about a visa delay which, it said, had disrupted the team's preparation for the showpiece event.
PCB sources said that the team bonding trip to Dubai has been cancelled as players await their visas from the Indian High Commission in Islamabad.
Pakistan's pace attack will be led by Shaheen Shah Afridi and he will be supported by Haris Rauf, Mohammed Waseem and Ali in a largely unchanged side led by Babar Azam.