Protests erupted after President Uhuru Kenyatta was a declared victor over opposition leader Raila Odinga in the August election.
Amnesty International and Human Rights Watch reported 67 opposition supporters have been killed in protests since the August 11 announcement that President Uhuru Kenyatta had been re-elected in the first election.
Odinga, whose allegations of vote-rigging led the country's Supreme Court to nullify the first election, later withdrew his candidacy for the new vote. Odinga has withdrawn from a re-run on October 26, leaving Kenyatta as the only candidate, prompting further protests.
The young man was shot dead near a protest, but it was not clear if he was involved in it.
Police teargassed a large crowd of protesters in the opposition stronghold of Kisumu, who set tyres alight, blocked roads and pelted policemen with rocks as they kicked off daily protests just 10 days ahead of the election.
Kenya's police chief Joseph Boinnet said this report was "totally misleading and based on falsehoods", adding police were only aware of 12 deaths which they were investigating.
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"Researchers found that although police behaved appropriately in some instances, in many others they shot or beat protesters to death", the groups said in the report.
Kenya's high court on Tuesday temporarily lifted a government curb on protests in three main cities, until a full hearing can be held on an opposition petition to scrap the ban entirely.
A group of United Nations human rights experts called for the government's ban on protests to be listed and denounced a "pattern of police brutality" in response to recent demonstrations. "Even before this ban was imposed, we were witnessing a pattern of police brutality and excessive use of force against protesters, as well as consistent harassment of judges and threats to civil society", the statement read in part.
During the violence the parents of a six-month-old baby in western Kenya told Reuters their child was clubbed by police in her home and died later in hospital from brain trauma.
Human rights groups have accused police of being used by Kenya's president to crush dissent.