Kapur, who was even for the day and way down on the leaderboard, aggregated eight-under 280 at the end of tournament.
Meanwhile Gaganjeet Bhullar suffered a major mid-round lapse with three bogeys and a double bogey from eighth to 11th and finished with a card of 77 and ended tied 50th at two-under 286.
Former Ryder Cup star Ross Fisher overcame a gallant charge from Michael Hoey before eventually charging to a three-shot victory.
Kapur had just one birdie and one bogey in his first 15 as he struggled to hole his birdie putts. Then he found three in a row and climbed up. Bhullar, inside top-10 at one stage in the tournament at the halfway stage slipped in third and went down further in the final round.
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Fisher then eagled the long 15th from 25 feet to extinguish any realistic hopes the chasing pack may have rendered, as he secured his fifth European Tour title and first since 2010 with a closing round of 70.
Fisher admitted his eagle on the 15th had helped to settle any potential nerves. Hoey eventually signed for a closing 68, while Van Tonder was bogey-free in his round of 66.