I found where the files installed. They installed to:
C:\Users\NAME\AppData\Local\VirtualStore\Program Files\Magic Set Editor 2\data
The only way to get to the AppData folder is to either search for it or type the address into Explorer, seeing as how it doesn't show up on its own in the user's folder.
If you're running Windows 7, copy and paste the above address into explorer and replace "NAME" with your name. This will bring you to MSE's "secondary" data folder. Click "Include in library" and select "Documents." Doing this will include the data folder in your Documents library, which will in turn create an expandable menu in your documents folder that is the "secondary" data folder.
This is what it looks like after you perform the above: