Lee, the player of the match, hit an unbeaten 75 off 48 balls with 11 fours and two sixes, while Klerk remained not out on 37 off 31 balls and struck six fours.
The hosts comfortably achieved the 126-run target in 15.1 overs with nine wickets remaining.
Earlier, after being sent into bat, Pakistan women scored 125 for five. Nida Dar scored a 17-ball 28 with a four and two sixes. Aliya Riaz 26* and Bismah Maroof (23) were the other significant contributors.
Nida Dar was later declared player of the series for her all-round performance in the series. She scored a tally of 192 runs and captured five wickets in the series.