Local media channels reported that Zardari's sister, Faryal Talpur, was also being investigated by the anti-corruption body, the National Accountability Bureau (NAB). Corruption watchdog National Accountability Bureau had issued arrest warrant on him on Sunday. But he was never convicted of the charges and denies any wrongdoing.
The move is seen as a blow to the opposition Pakistan People's Party.
"The government has no role in (the arrest)", interior minister Ejaz Shah told parliament, saying it was a court decision.
The cases against Mr Zardari are part of the investigation being conducted by NAB in pursuance of the Pakistan Supreme Court's verdict in a case related to the money laundering of billions through fake accounts.
Pakistani authorities past year discovered several accounts, registered in the names of poor people, that had been flooded with cash, then suddenly emptied.
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The PML-N president demanded Asad Qaiser to issue the production order for Zardari.
During the previous hearing, the court had extended Zardari and his sister's pre-arrest bail till June 10.
He was elected to office after the assassination of his wife, former Prime Minister Benazir Bhutto.
During Zardari's departure, PPP supporters chanted "Long live Bhutto", in reference to one of South Asia's most famed political dynasties that has ruled Pakistan on several occasions over the past five decades.
Imran Khan was elected previous year vowing to root out the corruption that has dogged the country and saying he would track down vast sums stolen by the country's political elite.