The Memogate case is based on a 'memo' which Haqqani, who currently lives in the US, allegedly gave to a high-ranking American official in May 2011, seeking US help against possible military intervention.
Haqqani denied any role in the 'memo' but a judicial commission in 2012 held him responsible.
Haqqani left the country in January 3, 2013 after a commitment with the court that he would come back to face charges but never returned.
During todays hearing, he said that Haqqani had submitted an undertaking before leaving for the US that he would appear before the court but has failed.
He also informed the court that the FIA needs an arrest warrant issued by the court to proceed against Haqqani.
The bench accepted the plea and issued the arrest warrant against him.
It is however unlikely that he would return or handed over by the US authorities to Pakistan.
Haqqani said recently that he would not return to face the case.
(This story has not been edited by Business Standard staff and is auto-generated from a syndicated feed.)