I've seen soft top patches in the auto parts store before. I would try that.
2013 JKR, Commando Green, 6-speed, soft top
Mods Complete: ACE rock rails, AFE high tuck axle back, Bartact OD Seat Covers, JW Speaker 8700 Evo J, Teraflex HD tire carrier, AEV 2.5" lift, AEV front & rear diff covers
Mods To Come: Rock Hard aluminum front & rear bumpers, winch, AEV Salta wheels, 35's, LED fog lights (Inspired Engineering, Quadratec, or JW Speaker)...