Both matches, which take place at the U. J. Esuene Stadium, Calabar will happen on March 2 and March 4.
The Nigeria Football Federation has organized the games as part of the Golden Eaglets' final phase preparation for the African U-17 Championship taking place in Morocco between 13–27 April.
Manu Garba's boys are unbeaten in 20 friendly and competitive matches since coming on stream last year, and swept into the African U-17 finals by winning all six qualifying matches, scoring 21 goals and conceding only one.
In contrast, Botswana's cadets only squeezed past Malawi, Rwanda and Algeria to reach the eight-nation finals.
Prior to their qualifying race last year, the Eaglets played a similar two-leg friendly against the Rwandan Under-17 Team, also in Calabar, both of which they won comfortably.
The Eaglets will fly out of the country to Qatar on March 13, for a four-week final preparatory programme ahead of the continental showpiece in Morocco. They will be availed of the exquisite training facilities at the world-renowned Aspire Academy for Sports Excellence, Doha.
Nigeria take on Ghana, Ivory Coast and debutants Congo Brazzaville in Group B of the African U-17 Championship in Morocco.