The 22-year-old Scott, representing the Arkansas Razorbacks, bettered Rene Kalmer’s national mark of 9:01.41, set in Doha in March 2010, by nearly nine seconds.
This marks her third SA indoor record in the last 12 months.
Scott clocked 4:36.11 in Fayetteville in February last year to chop more than four seconds off Angela Wagner’s six-year-old mark in the women’s mile.
Last month she returned to Fayetteville and dropped down in distance, crossing the line in 2:07.53 to improve Mandie Brandt’s 14-year-old 800m record by more than two seconds.
Elsewhere at the weekend, sprinter Anaso Jobodwana finished second in the men’s 60m race at a collegiate meeting in New Mexico in 6.60 seconds, improving his personal best by 0.02 in only his third race after returning from a lengthy injury layoff.
Fellow speedster Carina Horn chipped 0.01 off her 60m career record, taking second place at the Istaf indoor meeting in Berlin in 7.20 as she missed Wendy Hartman’s 16-year-old national record by 0.05.
Rising long jump star Roelf Pienaar equalled his personal best of 7.97m to win his event in New Mexico, again falling just 11cm short of Khotso Mokoena’s SA mark in the single-leap discipline.