Great ideas for refining the fit. I found similar issues.
The length of the side rails is critical. When I bent the tops of the rails to a proper 90 degrees, the overall length was a bit too short and the top plate was not contacting the flange in the head basket. I added thin washers between the rails and the top plate, which fixed that problem but left the bell end not fitting well. I may try grinding the tops of the rails flat. I also thought of making a gasket to seat the top plate into the head more securely.
I ground a slight radius onto the bottom rails so they contact the curved bottom bell better.
There actually does seem to be a sweet spot where the screw holes line up and the top and bottom parts fit well, but it takes some tweaking to get there.
The length of the side rails is critical. When I bent the tops of the rails to a proper 90 degrees, the overall length was a bit too short and the top plate was not contacting the flange in the head basket. I added thin washers between the rails and the top plate, which fixed that problem but left the bell end not fitting well. I may try grinding the tops of the rails flat. I also thought of making a gasket to seat the top plate into the head more securely.
I ground a slight radius onto the bottom rails so they contact the curved bottom bell better.
There actually does seem to be a sweet spot where the screw holes line up and the top and bottom parts fit well, but it takes some tweaking to get there.