The Buffaloes (15-3, 5-2 Big 12) built a 10-point lead midway through the second half and held off the Bears down the stretch.
Baylor (13-5, 2-4) got 14 points from foul-troubled Steffanie Blackmon and 13 each from Dionne Brown and Jessika Stratton.
For the game, Colorado made 22-of-27 free throws compared to the Bears' 9-of-10.
Colorado, leading 28-26 at halftime, used an 11-4 run early in the second half to take a 43-36 lead, and Baylor never recovered.
Scott and Kate Fagan each hit 4-of-4 free throws early in the second half. Scott added a baseline jumper and Bjorklund a layup during the 11-4 spurt, and Lappe's two free throws made it 50-40 with 8:42 remaining.
Baylor cut the deficit to 54-50 on Stasha Richards' 3-pointer with 5:58 to go, but the Bears could get no closer.
Randie Wirt hit a baseline basket and Fagan two free throws, and Lappe made 4-of-4 from the line for a 62-52 lead with 2:14 left.
Jordan Davis cut the deficit to 64-59 on a 3-pointer with 33 seconds left, but Scott then hit two more free throws. To that point, Colorado had hit 19-of-20 free throws in the half. Lappe missed a pair with 17 seconds left.
Blackmon, Baylor's leading scorer, picked up her second, third and fourth fouls in the first three minutes of the second half. She played only 14 minutes of the half before fouling out in the final minute.
Bjorklund had 14 points in the evenly played first half, including Colorado's first eight points.
Bjorklund's two layups and Lappe's baseline jumper gave Colorado its biggest lead of the half, 21-15.
Baylor countered with a 9-0 flurry which was helped by three straight offensive fouls against Colorado. Sophia Young had two layups during the surge, giving the Bears a 24-21 lead.
Fagan's jumper represented the first Colorado points in more than four minutes and triggered a 7-0 run. Scott added a 3-pointer and Bjorklund a layup for a 28-24 lead.