+1. A lot of design systems assume that, for instance, there are only a few amounts of vertical padding you'll ever want to have on an element. But sometimes, the designer really will tell you that something needs 10 pixels of padding, your 8-pixel "p-2" value is too small, and your 12-pixel "p-3" value is too large.

That's the designers fault then. Most alignment issues are caused by fonts and their bounding boxes that are based on line height (fonts have a default line height they ship with). One of the errors I often see is that designers define font sizes based on the letter sizes, not based on their bounding boxes or how well they fit into the bounding boxes that should match the defined component sizes within their design system. Design systems have spacing scales, and fonts (and their bounding boxes) should be part of it.