Lahiri, who had an even par 70 on first day, did not find the momentum from almost the start, as he teed off from the 10th hole.
Also missing the cut were Rory McIlroy while defending champion, three-time Major winner, Padraig Harrington, who will be seen in action in India next month, recovered from a bogey-double start to find five birdies in the next seven holes as he roared to two-under 70. He made the cut at Tied- 28th.
Lahiri, the two-time winner of Malaysian Open and Hero Indian Open, who is playing his Rookie year on the PGA Tour had two doubles in his first four holes and never recovered from there.
He opened with a double on 10th as he went into trouble off the tee and then despite a birdie on par-3 12th, he again had a double as he took a penalty drop following an errant tee shot. He turned in three-over and at that stage he was on the cut line.
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Fowler's second round was identical to his opening round -- no bogeys, another 66 in windy conditions and a big par save on his 10th hole. Having started on the back nine, Fowler worked himself out of his toughest spot well right of the fairway and managed to get up-and-down for par to keep some momentum.
Jimmy Walker finished birdie-eagle, holing a 40-foot putt on the 18th hole for a 66 and was one shot behind. Sergio Garcia had a 69 and was another stroke back.
Fowler is the first person to go bogey-free over the opening 36 holes at the event since 2007.
McIlroy headed home after a 72. He took a triple bogey on the par-5 fifth -- his 14th hole of the round -- and a birdie on the final hole put him at 4-over 144. It was second straight year for McIlroy to miss the cut.