[vkmotorsports]

I opened the cover again, and saw that it has two grommet style things that fit into specific hexagonal shaped slots. I made sure those slots were aligned correctly and retried the whole operation again of opening the convertible top fully and then closing it back. I waited till the whole top and cover was flush with the body and then locked it in place.

I think the issue was that I had locked the convertible top sooner than expected maybe in the past.