No. Low profile socket cap screws look the same as a regular soc cap screw. Just the head is a bit shorter. Doesn't need as deep of a counterbore. Same look as before.
My problem was the opposite one. The socket caps were the correct size, and my countersinks in the top of the fascia fit them perfectly. But the overall thickness of the fascia being 1mm thinner than before meant that, when I screwed the screws all the way down into the PCB standoff bolts, there wasn't enough "depth" in the standoffs to take the full length of the screws. So even screwed in all the way, the screws were still "loose" by about 0.5mm, meaning the fascia rattled loose with about 0.5mm worth of "play" and also, secondarily, the screws stuck up above the fascia by 0.5mm.
Since I needed to do another design pass at the fascia for other reasons anyway, it was easier to just make raised bezels for the screws (including raising up the beds of their countersinks by the same amount) like the original fascia design had.