I've been saving up for an SSD, but before I pull the trigger, I was wondering how I could clone ONLY the system partitions and Windows files to it. It's not large enough for my games and files, so I cant copy the whole drive. Is there a way I can just select Windows or do I have to completely reinstall it?
Doesn't seem possible: http://www.tomshardware.co.uk/answers/id-1754843/cloning-ssd.html I'd suggest you to remove as many thing as you can so that you can just clone the whole drive to the SSD.
As Nad said, I'd just delete or move every game to another drive and clone it. Or just completely reinstall Windows.