Ondrej Bank of the Czech Republic posted the fastest time of the day at 1:54.32. Italy's Dominik Paris was second in 1:54.38.
Goldberg, who will make his first-ever Olympic super-combined start, finished eighth, 0.93 seconds back.
Embedded owg_slideshow: Sochi Olympics: Second Men's super-combined training
Ligety, one of the gold medal favorites in the super-combined, trained on the Rosa Khutor course for the second time and finished 11th, 1.46 seconds off the pace. It was a marked improvement over Ligety's first inspection on Wednesday, when he was 4.50 seconds behind Miller's leading time.
Andrew Weibrecht, hoping to rekindle some of the Vancouver magic that helped him win a surprise Olympic bronze in 2010, finished four-hundredths of a second in front of Ligety.
Travis Ganong, the fifth American to start the training run, finished 18th in 1:56.65. He was the top U.S. skier in the men's downhill, finishing fifth.
Downhill gold medalist Matthias Mayer was fourth, 0.24 behind, and Ivica Kostelic of Croatia — who took silver in combined at the last two Olympics — was sixth, 0.79 behind.French contender Alexis Pinturault was 12th, 1.80 behind.