Atler began her 1999 season in February with a strong showing at the American Classic, where she won the all-around title by a large margin with top quality routines on every apparatus. In March at the American Cup, she became the first American woman to successfully complete a Rudi vault in competition. She won the event title on that event, as well as the beam and floor titles. Despite falling off bars in Preliminaries, she placed first all-around in that round of competition. During Finals, her routines were extremely strong on three events, but she fell off bars once again, which cost her the title and dropped her to third all-around.