Doesn't this situation makes you very angry at Apple? It's all Apple's fault.
We have to deal with this crap because of Apple and Apple alone. Why? Mac App Store.
Not only is the MAS terrible as an app itself, those stupid restrictions that even Apple doesn't respect (see xCode) only mean that Mac users won't get a trustworthy download/install/update/uninstall method and a single trustworthy place to get their software from.
Transmission is one of those apps that make a Mac "worthy". A true classic app. Beautiful, lightweight, great functional interface.
It's time for our stores to get the "native" treatment (itunes too) and for Apple to change their policies not only what is/isn't allowed as an app, but what permissions/restrictions the app gets.
Then, we can have a single, trustworthy, place to download software from.