Anytime I try picking up nanocatalyst, it says that I acquired x amount of nanocatalyst, but it is not there when I open the suit customization screen.

It's bugged. Nothing you can do with it afaik!

my number resets when i reload the game.

I am hacving the same exact issue...it is saying that I pocked up nanotech, but it doesn't accumulate for me.

This issue needs a hotfix. I'm not playing anymore until it's fixed.