The measures are expected to last for about three weeks in 16 regions, including Okinawa, Yamaguchi and Hiroshima, which were already placed under some restrictions earlier this month.
The new measures include earlier closing hours for restaurants, a ban on serving alcohol and restrictions on large-scale events.
Booster shots for elderly people, who received their initial inoculations starting in April, are expected to begin in January.
The transportation ministry said the request is an emergency precaution amid growing worry over the spread of the new omicron variant.
Japan confirmed on Tuesday its first case of the new omicron coronavirus variant, a visitor who recently arrived from Namibia.
The monthly average number of unemployed people for any length of time decreased by 110,000 to 1.91 million.
Japan reported no daily deaths from COVID-19 on Sunday for the first time in 15 months, as infections decline rapidly in the country.
Outgoing Japan PM Yoshihide Suga thanked the people for their patience and cooperation, and asked them to stick to their basic anti-virus measures.
With the lifting, Japan will be entirely free of any emergency requirements for the first time since April.
The Club World Cup was last held in Japan in 2016, and the JFA had planned to host the 2021 edition as part of its 100th anniversary celebrations, Kyodo said.
New daily COVID-19 cases totaled 25,146 people nationwide, averaging 20,307 a day this week, up from 14,729 last week, the Health Ministry said.
There have not yet been infections reported among athletes in the Village, which opened to Paralympians on Tuesday.