Reformatted SSD - Programs And Features Selection Empty

I have a custom PC for the past year and my main Windows 7 boot drive was giving my some aggravating problems. Board is an EVGA P67 SLI with a Crucial C300 128GB SSD as the main boot drive in the SATA3 location. I've seen MANY cases where people were having some slowing speeds with the drive and I finally came along with that problem as well, and since I only use the drive to boot up I figured a reformat would be a nice way to simply start over.

Regardless, I have 2 other mechanical hard drives one in which stores everything from Steam Games to Ventrilo and other software. The other is simply used for personal things like Pictures, Music, and Videos. My "Programs Drive" is simply like the "Program Files" of your typical C: drive really. Everything I can put on that one goes on that one and basically I use the SSD for the start up times since P67 doesn't support caching like the Z68s do.

My issue is, now that I've reformatted my main SSD drive when it comes to playing my games I'm only able to play whatever is through Steam. If it isn't through Steam then it simply doesn't run. Even when I actually try re-installing it again just for registry purposes it doesn't go through. Obviously my "Programs & Features" selection is a bit empty right now because nothing is registered on my main drive. Should probably look into doing that at some point as well with Steam and all of the installed games.