Glenn Maxwell said it was a "genuine oversight" on his part that he did not shake Sarfraz Ahmed's hand in Harare.
Australia ran out of momentum late in their innings and Pakistan capitalised by charging to victory in the Twenty20 Tri-Series finale.
What should have been a comfortable Australia chase became nervy in the closing stages as they beat Zimbabwe with one ball remaining.
Fakhar Zaman starred with the bat and teenager Shaheen Afridi with the ball as Pakistan eased to victory over Australia.
David Warner will not be considered for future Australia leadership roles but he will be skippering Winnipeg Hawks.
Aaron Finch hit 10 sixes and 16 fours in an extraordinary display of clean striking, bettering his own world record in Harare.
Aaron Finch bludgeoned a brutal 172 from only 76 balls to set a new world record and put on an unprecedented stand of 223 with D'Arcy Short.
Thon Maker took responsibility for his actions in the melee during Australia's win over the Philippines.
Finland and Bulgaria moved through in FIBA Basketball World Cup qualifying on Monday.
Thirteen players were ejected following a huge brawl in the FIBA World Cup qualifier between Australia and the Philippines.