That's not good, sorry about that, do you mean the shop upgrades or the in-game power ups?
Can you tell me if you are using the webgl or webplayer version and which browser you are using?
Update: I think the problem was that I wasn't calling playerprefs.save(), I'm not 100% sure this will fix your problem because I can't repro it, but it's very likely. If you like refresh the page until you see version 1.0c it has the new code.
It's being an amazing journey, thanks for the support!