Join Date: Aug 2014
Location: Bismarck/Mandan area of North Dakota
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OK first is the indicator on the dash lit indicating the top is open? The batteries need to be in good full state of charge may have to put a battery charger on it for a bit to make sure. Then one needs to hold the button for a bit in either open or closed position to get the top to fully lock again, mine did the same thing last winter when I had it stored with battery hooked up without a battery maintainer on it Battery was stone dead and the top lock released over the winter when the battery died and the trunk wouldn't open. The trunk will not operate electrically "but you should be able to open it with the key" if the top is not locked in completely. My be a separate issue.
Since you unhooked the batteries the auto windows will need to be calibrated as well now, this is laid out step by step in the owners manual. If I remember correctly it is simply hold each window button both in open for 3 seconds and closed for 3 seconds after window is to full travel.
2011 CrossCabriolet, 22K miles, Platinum Graphite w/black interior and top. 2014 VW Jetta TDI 6 speed 60K miles pending VW buy back with DPF delete and Malone stage 2 eco tune, 45-49mpg now versus a best of the 39mpg when stock . 05 Dodge Cummins 2500 4X4 130K miles. 2010 Dodge 1500 4X4 Hemi 115K miles, 2011 22' triple tube Bennington Pontoon.