Convertible top adjustment.

Shrinkage of the top generally that causes difficulty latching it to the windshield header. Fix for shrinkage is to let top warm in sun to become supple.

I have left my tops down for a year or two at a time, and a warm sunny day works wonders.

You said the top was not folding fully into the well. That indicates some binding or reduced travel of top frame. That is why it is important to separated hydraulic system from top frame articulation to ease diagnosing the problem.