Williams finished with 99 rushing yards. Jones completed 25-of-36 passes for 277 yards with two touchdowns and an interception as Oklahoma (7-2, 5-1 Big 12) posted a second straight victory.
Brennan Clay and Blake Bell each ran for a score as Coach Bob Stoops passed Bud Wilkinson for second place on the Sooners' all-time list with 145 wins.
Baylor (4-5, 1-5) was led by Lache Seastrunk, who scored a trio of touchdowns en route to 91 yards.
Nick Florence picked up 172 aerial yards on 12-of-33 passing and ran for 83 more on 15 carries in the Bears' loss.
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