The others are Egypt's President Abdel Fatah el-Sisi in April 2017 and Nigeria's President Muhammadu Buhari in April this year.
Ms Trump praised Ms Kenyatta's community initiative.
President Donald Trump warns in a secretly-recorded closed-door meeting with evangelical leaders that there would be "violence" if his party loses in the November elections.
"It was a pleasure having First Lady Margaret Kenyatta at the White House".
President Trump assured that his administration will continue to work with Kenya to grow their partnerships in trade, investments and security.
The New York Times offers a similar report.
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Kenya's Ambassador to the US Robinson Githae said that the visit is expected to increase trade investment Africa particularly in Kenya.
"Well, you were here on a very special day", Trump told Kenyatta, adding: "Everything I said is going to happen, it ends up happening, so you picked a good day to come".
Uhuru said a strong partnership between Kenya and the United States was essential in achieving his Big Four development agenda in manufacturing, universal healthcare, affordable housing and food security. We're talking about a very major highway/roadway.
Kenya is the third highest recipient of US security aid in sub-Saharan Africa, according to the Security Assistance Monitor.
Kenyatta has been trying to bolster his image following a crisis in which Kenya's Supreme Court overturned the August presidential election, citing irregularities, and the opposition boycotted the fresh vote. "But now they are, and you can see from the number of Companies that have set up base in Nairobi and we want more to do so", he stated, but warned that the president will not meet Kenyans living in the U.S. due to his tight schedule. He'll host British Prime Minister Theresa May in Nairobi, Kenya's capital, on Thursday.