Mr Zardari also met with 15-year-old victim's family during a private meeting at the specialist Queen Elizabeth Hospital in Birmingham, central England, where Malala was flown from Pakistan in October following the brutal attack on her school bus.
"President Zardari, accompanied by his daughter Asifa Bhutto, met with clinicians who have been treating Malala since her admission to the hospital," the hospital said in a statement.
"They were brought up to date on the 15-year-old's medical progress and her future treatment plan by (the trust's) medical director, Dr Dave Rosser."
In an attack that shocked the world, Malala was shot in the head on October 9 as punishment for the "crime" of campaigning for girls' rights to go to school.
She miraculously survived the murder attempt but requires reconstructive surgery after the bullet grazed her brain, coming within centimetres of killing her.
There have been calls for the teenager to be nominated for the Nobel Peace Prize, while the United Nations declared a global "Malala Day" last month to show support for her education campaign.
Pakistan is paying for her care at the Queen Elizabeth hospital, which also treats British soldiers seriously wounded in Afghanistan.
Malala has received thousands of goodwill messages from around the world and has said she is overwhelmed by the outpouring of support.
She rose to prominence aged just 11, writing a blog for the BBC Urdu service describing life under the Taliban's hardline rule in the Swat valley in northwestern Pakistan.
She was awarded the Pakistani government's first national peace award and was also nominated for the International Children's Peace Prize.