I've only left the bulk of my gear at TC a few times, and I've never packed it up before I left. I've always left my tent pitched and open (for marmot purposes), and my bear bin a little ways away. And each time I've done it, I've gotten back to TC wishing I'd done what you did and packed it all up before I left so I wasn't stuck doing it once I was already tired from the days hike.
If your gear is all packed up, I wouldn't be too worried about wind carrying it away. And if you're worried about someone taking it, there's plenty of places you could stash it so it isn't easily seen by the masses. I usually mark my stashes along trails with a GPS, so I know exactly where I left it when I get back.
