The five-nation Super Rugby tournament was suspended after seven rounds in March because of international travel restrictions and quarantine requirements.
England's Rugby Football Union (RFU) last month confirmed the end of the 2019-20 season for all league, cup and county rugby due to Covid-19 but the English Premiership was excluded.
Springboks out-gunned England 32-12 to win the trophy for the third time and reassert the supremacy of the southern hemisphere on Saturday.
Argentina outscored the South Africans by four tries to three in a fevered performance, aided by a litany of mistakes by their visitors.
Beauden Barrett's four tries is a new All Blacks record in a match against Australia as New Zealand retained the Bledisloe Cup with a test to spare.
The All Blacks' pack were decisive in the 38-13 rout at Sydney's Olympic stadium on Saturday, dominating the set pieces and winning a slew of line-outs from the Wallabies' throw.
Ireland dispatched Scotland, but it was France's victory over England in Paris that secured the championship for the Irish.
Jones had been due to step down after the 2019 World Cup but having overseen a run of 22 wins from 23 Tests, the England's Rugby Football Union have decided to extend the 57-year-old's tenure.
South Africans criticise and express disappointment over the outcome, especially since an evaluation report had favoured their country.
Despite a second half fight back by the French, the five tries scored by New Zealanders was more than sufficient to hold the French at bay.
There was real hope among British fans that this team might become the first Lions team since 1971 to win a tour in New Zealand.
England will take on Ireland with just one victory away from making a record of most consecutive wins.
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