Alfred 2.1.1 and OS X Mavericks for me as well!
I tried what you suggested but it didn't work, and I'm having the same issues with my hotkeys, they don't trigger anything anymore :/
Amazing workflow, the best for Alfred I would say!
Unfortunately, it seems that it's not working anymore, I'm getting the same issues as Wolfie2804 since the new update of Alfred (2.1.1), could it be related?
Cheers!