The All Blacks lock was supposed to fly to Brisbane on Friday to start two weeks in hard quarantine, after remaining behind in New Zealand for the birth of his third child.
New Zealand Rugby (NZR) was only granted an exemption for Whitelock to quarantine in Queensland late on Friday, with his flight delayed until Tuesday.
NZR believe the timing of Whitelock's arrival would not give him enough time after two week's hard quarantine to safely prepare to play against South Africa on October 2.