you mean the full pad should be exposed? I thought this was the case within the footprint itself...
Glad you made me check, there are more errors. (It's over 9000)
All the red arrows are errors, the green arrows are correct.
The purple is the exposed solder mask copper while the yellow on top is the solder paste stencil.
You have the switchers whose exposed pad AND solder paste stencil isn't under the 8 pin IC or the right size.
You have D3 by the opamp which for some reason doesn't have any solder paste.
And for the large power connectors, for some reason, the circular pads aren't solder-masked out, but the square pin 1 on them is properly solder masked out.
Now, my old gerber viewer has shown a D-code error on 2 files which may account for the bug, but you need to double check.
Once fixed, I would do a partial flood fill of the switcher IC's heatsink pad to the outer surrounding area above and below the IC to draw away some heat build up.