After the players had completed their weather-delayed third rounds in the morning at Crans-sur-Sierre, Hend held a three-shot lead over Paraguayan Fabrizio Zanotti.
The world number eight Ko is tied for the lead with American Lexi Thompson at the Indy Women in Tech Championship in IN after carding an eight under 64 in her second round.
"It was all calm when we started but after we went back, it was just so cold out there", said Hend after play was called due to darkness. "The greens got a little bit rough so I was just trying to be patient".
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Fitzpatrick started with bogeys on the first and third but gains on the sixth, seventh and ninth put the Ryder Cup star right back in the mix at an event where he has two previous top-10 finishes.
A superb wedge gave Hend the chance to exorcise his demons when the leaders came up 18 once again, but a nervy birdie putt followed and he duly made a mess of the same hole to gift victory to his rival.
"I love playing this golf course, from the first ever year I came as an invite in 2014 it's one that has really stood out on my schedule and I always want to come back and play".
Hend then hit back with a birdie on the 15th and a Fitzpatrick bogey on the 17th set up the dramatic finish.
Fitzpatrick sank a five-footer to exchange pars at the first extra hole, with Hend missing a birdie attempt for victory from a similar distance at their next visit to the 18th.