intake alignment?

bolt holes in head are to high,if I lift the intake up I can put the bolts in but then I have pretty big gap between intake and head.thought about bolting one side only down-no gasket,then I could mic the gap between the other head and intake.

Read this:

http://www.hughesengines.com/Upload/TechArticles/INTAKE_MANIFOLD_SEALINGJULY2015.pdf