The Frenchman was too strong for the two Norwegians, Chris Jespersen and Martin Johnsrud Sundby, who finished second and third respectively.
Almost exactly a year after his last World Cup win, at a skiathlon in Canmore, Manificat crossed the line in 1:05:10.8 hours to take the victory, his first in a freestyle event.
Meanwhile, Great Britain’s Andrew Musgrave was 36th as he came home in 1:07:58.3.
The victory catapulted Manificat into second in the overall World Cup standings on 260 points, 12 ahead of Russian Alexander Legkov but still trailing Sundby who is sitting pretty at the top on 351.
In the women’s 15km Norway’s Marit Bjoergen continued her strong start to the season as she edged out her compatriot Therese Johaug to take victory.
Bjoergen crossed the line in a time of 35:34.4 minutes with Johaug 13 seconds behind, Charlotte Kalla of Sweden was third.
The win keeps Bjoergen atop the overall World Cup standings, stretching her lead over Kalla and Johaug who sit second and third respectively.