That is a good question, to which I don't have an answer. I downloaded the latest HS2 from BetterRepack via the Nyaa torrent and did a fresh install into an empty directory. The resulting install had the mod "Graphics" 0.3.1 (or 0.3.3?) installed, notIs it possible that this mod gone lost in newer R10 packages by a mistake?
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. Once I manually installed OrangeSprok's 0.5.2 I could save the presets and SSS and all related graphic settings remain enabled even when I restart the game.