Michael Owen scored his ninth of the season, a left-footed shot inside the box on 34 minutes.
Alan Smith equalised following good work from Pennant on the wing on 42 minutes.
Substitute Danny Murphy scored Liverpool's second from a free-kick on the left of the penalty area after an error from Paul Robinson in the Leeds goal on 57 minutes.
Florent Sinama made it 3-1 with his first goal for the first team on 85 minutes.
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