Setup Commander helps you to create deployment packages by either dynamically detecting installation options, or in many cases, providing a simple wizard to dictate installation options for which you might otherwise be unaware. I wrote about Bundle Commander before, which is a similar offering geared toward ZenWorks users (and includes an integrated ITNinja search feature). The "Setup Commander" edition is meant for the rest of us using tools like the Dell KACE K1000, RES Automation Manager or Group Policy.
Below is a video showing off its Configuration Manager/MDT integration, but even if you are not a SCCM user, watching this gives you a good look at what the tool can do as it runs through the quick creation of several packages presenting a simple Custom Installation Wizard for several of them along the way (by that I mean that for some of the applications, you'll see a single dialog of application specific installation options).
In the latest release, an new feature called Application Setup Center adds the ability to discover and download the latest version of several common applications right within the tool. For screen shots and more details on the Application Setup Center feature see its official blog post here.