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If you can provide evidence (ie. Garmin track) that you rode the route then it should be ok. Not sure how much Nathan cares. I remember one of the racers in the first one I did not happy about one of the Italians who disappeared for days and he reckons there's no way they moved ahead. But I can sympathise with tracker issues too, having sent one faulty Spot back for replacement myself.
Jani's tracker wasn't showing for the last 5 days and he finished 3rd, before Omar. Omar is not too happy about it: https://www.facebook.com/groups/524758520982933/permalink/2260064907452277/?comment_id=2260094727449295&comment_tracking=%7B%22tn%22%3A%22R%22%7D