How to change windows, ctrl and alt keys on a specific keyboard?

I have a MacBook with Windows on it for work. I used a program called KeyTweak to rebind the Alt, Ctrl and Windows keys so they'd work like they do in Mac OS.

Whenever I plug in an external keyboard however, these keys are also rebound. Is it possible to fix this? I've already tried Microsoft layout creator but you can't rebind the windows, Alt and Ctrl keys on that.

I'm using Windows 10.