For the winners, overnight hero Chua Boon Huat did the star turn with an opportunistic goal, scooping it high into the net which flummoxed the goalkeeper Devon Manchester.
It was brilliant move that started on the left flank with Md Jalil Marhan, who did the spade work and dribbled past on the goalline before releasing a minus pass into the circle.
Boon Huat pulled the ball out from a crowded defence and chipped into the net that left the goalkeeper with no chance.
It was a long ball into the circle and Tengku Ahmad Tajudin deflected from top of the circle and the ball caressed a defender's stick before settling in the goal.
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The twin strikes, though against the run of play, put the Kiwis on the back foot. Kiwis, however, came back with a late penalty corner goal in the 68th minute when Shay Neal deflected in an indirect variation from the right side to reduce the margin. But it was too little, too late.
Malaysia will take on Australia while New Zealand will take on Korea on 12th after a day of rest on Monday.