Groo, I make sheaths, holsters, and various stuff out of Kydex and I think this really won't do what you want safely. I've tried (for a removable HD). The expanse of the panels is too wide. Although there's good protection from penetration and scratching, there is almost none for crushing. The kydex is too flexable.
I have not tried multiple layers of Kydex. Now what I use to pad my laptop when I stick it in anoter case/pack is a piece of an old ensolite sleeping pad.