By any chance does that conditional format also change the text size? That's a method often used to make text conditionally invisible in FileMaker layouts.
The conditional formatting for all of the affected fields simply changes the font color. It does not change the font size.
What's interesting is that only certain fields show this.
If you check their appearance settings, do these fields have anything in common that the fields that don't show this do not have specified?
If you use the field tool to add a new copy of one of these fields to the layout does it also show this odd appearance?
Is the delineate option specified in layout setup? If it is, what happens if you clear that check box?
How does the appearance of these fields change when you continue the paused script?