Trump left the country after five-hours visit and headed to Kenya and she will also visit Egypt having visited Ghana.
The US First Lady then visited Chipala Primary in Malawi's capital, Lilongwe.
In the spirit of the first lady's "Be Best" initiative, during one class visit, a teacher led what appeared to be an exercise in self-confidence, asking students to stand up and say their name along with, "You are the best!"
The American First Lady described her visit to Cape Coast as "impactful" and said it "was a solemn reminder of a time in our history that should never be forgotten", after she was told the horror story of how slaves were kept at the fort before they were shipped to the Caribbean. She will hold a brief meeting with President Uhuru Kenyatta and First Lady Margaret Kenyatta. Later she visited another Chichewa classroom and laughed when a little boy stood up and, in English, proclaimed, "I am the best". "We are happy today, we are happy today to see you".
The first lady later left Malawi for Kenya.
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School educators also explained to the first lady how important the USAID textbook donations, which help power the country's National Reading Program, are to children at the school. "I was heartened to spend time with the students, and was honored to donate school supplies and soccer balls", she said.
But a few signs of protest were afoot, too, as President Trump is not widely seen as a friend of Africa.
Melania Trump met with Malawian First Lady Gertrude Maseko at the state house for tea before watching three traditional dance performances.
And two other white people had a "welcome to Malawi # notashithole!" sign.