The Bafana Bafana goalkeeper has been out of action since the second half of last season due to an injury.
Khune also missed the Africa Cup of Nations in Egypt recently and the Carling Black Label Cup match against Orlando Pirates on Saturday.
Chiefs performed dismally when they lost to Pirates 2-0 at a packed FNB Stadium on Saturday.
They looked disjointed especially in the first half, but came back strongly in the second half.
Amakhosi gave debut to one of their new recruits in Zambian striker Lazarus Kambole, who missed a glaring opportunity in the first half.
Middendorp says the Zambian was not in his best shape.
Chiefs unveiled four foreign players last week – Kambole, Kearyn Baccus, Samir Nurkovic and James Kotei.
They will begin their season with a match against Highlands Park on Sunday away from home. – Report by Vincent Sitsula