Thanks.
No, it starts out perfectly clear, then the bubbles form after resin seals and hardens at the entrance of the case.
I have purchased and am waiting on a handheld UV laser to be delivered which was recomended by Randy_Cohen in his post. It has a nice wide beam that I can use to cure the case in the direction starting from the sealed end and moving towards the open end.
That way no uncured resin gets trapped which might solve the problem.