not realy a runtime clip or clip range problem. it's a construction problem.

what your looking at is too many thin surface areas on blocks with too many surfaces areas of each block not aligned to the axis level grid.

the more angular surfaces on an individual block, the higher chance it will be clipped in build and even have edge vertex moved ( like the slivers your pointing at with both very bottem arrows in both pictures). build will compensate for either no snap to grid for that edge or when a block surface becomes to small/thin to process during build by moving the edge.

go back and rebuild the structures using more axis aligned blocks.

and DON'T use CGS cut. looks like you used CGS cut on a hollowed out 8 sided cylinder to create the dog leged brace on the left side of the screen. hard to tell on the rest but looks like a block intersecting anotehr 8 sided cylinder where it intersects at least 2 faces on the cylinder. don't run a block THROUGH another block, instead build it so the surfaces touch. since that 'beam intersecst 3 surfaces that I can see, you want to make 3 block for the beam. one to sit flush with its parallel face and a 2 smaller ones to handle the angled surfaces.