Hi, I also like keeping that organization.
Open "File Explorer" (or so) and browse to:
\my Device \Windows \Start Menu \Programs
in this folder you'll see that desired link icons you want to move so, select it and cut it to desired folder - i.e. you have CleanRam and want to move it to tools, using File Explorer follow all the steps and keep pressing its icon until the menu pops up, then select Cut, open the Tools folder and press Menu \Edit \ Paste!
Very simple