The two teams from Russia and one from China "completed WHO's rigorous classification process," the agency said in a statement.
"This means that, when a disaster strikes and an affected country requests help, we can quickly deploy medical teams that we know meet our high standards," WHO chief Margaret Chan said in the statement.
The certification programme was launched last year in a bid to ensure that medical teams sent abroad to respond to an emergency have well-trained staff and bring along the proper medicine and equipment to respond to the situation.
The certification programme came in response to the humanitarian and medical aid debacle in the wake of the devastating earthquake that struck Haiti's capital Port-au-Prince six years ago, killing more than 200,000 people.
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"We saw hundreds of teams descend on Haiti with the very best intentions to treat those affected by the earthquake," Ian Norton, who leads the work on foreign medical teams at WHO, told reporters.
Since then, the global medical community has taken great strides to better coordinate responses to disasters and outbreaks, Norton said.
He stressed that it is always better for countries to ensure and coordinate their own emergency response.
But in cases where they need outside help, the foreign medical teams must be sufficiently trained and bring with them the appropriate medication, which must meet international standards.
Providing teams with WHO certificates will help ensure that "disaster-affected governments and their populations (receive) predictable and timely responses by well-trained medical personnel and self-sufficient teams," WHO said.