Hard Drive Upgrade Question
 

So I just installed 2 1.5 terabyte drives in my mac pro. This is my first time working with multiple drives. I want to just run my important video editing aps off my start up disk so I can store my footage on the bigger drives... but my less important aps like video games I want to move to my bigger HD to clear space for my startup. Can I literally just create an Applications folder on a separate disk, move over the Starcraft 3 folder and not have a problem? Or do you have to run all aps off the startup?