I'd really like to see this feature added so that in the admin panel I can specify the order that applications appear on the chat bar. I'd also like to be able to choose where bar links appear; currently the one I have added on my char bar appears to the left of the applications button and I'd like it to the right in amongst the applications.
As well as this ability to set the order, I think it would be good to add the option for admins to choose whether or not they allow their users to re-order applications and links themselves.