The talks took place in Rawalpindi during a meeting between the minister, accompanied by a delegation, and the army chief. The Inter Services Public Relations (ISPR) reported that both sides focused on issues of mutual interest.
The World Health Organisation has declare recent outbreak of the disease as a public health emergency of international concern after a new variant of the virus has been identified.
Khan was jailed in the run-up to a February election, and his Pakistan Tehreek-e-Insaf (PTI) party was targeted by a crackdown analysts say was a result of his defiance against the country's powerful military.
The South Asian nation agreed to the deal -- its 24th IMF payout since 1958 -- in exchange for unpopular reforms, including widening its chronically low tax base.