Ms Markle, wearing a white boat-neck dress by British designer Clare Waight Keller, was walked down the aisle by Prince Charles.
At the altar, Prince Harry told her: "You look amazing."
Now married, the couple will be known as the Duke and Duchess of Sussex.
The guests, many of them A-listers, included Oprah Winfrey, George and Amal Clooney, David and Victoria Beckham and Sir Elton John, who later performed at the wedding reception.
Ms Markle's sculpted dress was designed by Ms Waight Keller for French fashion house Givenchy.
Most striking was a diamond bandeau tiara, loaned to her by the Queen, and a trailing five-metre silk veil embroidered with the flowers of each country in the Commonwealth.
Prince Harry and his brother and best man, the Duke of Cambridge, wore the frockcoat uniform of the Blues and Royals.
He was given special permission from the Queen to keep his short beard as it is customary to be clean-shaven when dressed in Army uniform.
Prince Charles walked Ms Markle down the aisle, after her father, Thomas, was unable to attend for health reasons.
Mr Markle, 73, reportedly watched the ceremony from California.
He told the US celebrity website, TMZ: "My baby looks beautiful and she looks very happy."
CONGRATS TO THEM
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FACEBOOK COMMENTS
Niyeck Nandack
To me, it is inconsequential
Endy Edeson
@Niyeck: Hahahahaha. I really love your comments. I can't stop laughing. Well, let me know the date of your royal wedding . @Azumi: Yes, oooo. I like it when the world is celebritimg Their wedding is a big source of entertainment to many people today
Endy Edeson
@Azumi; Amen, your prince charming is on his way.