How do I get teststand to minimize it's execution window programmatically within a sequence step? How do I mess with any of the window propertys like making it always on top, maximizing, floating, etc...
Are you talking about the sequence editor? To do this you need to use the Windows API to perform functions on windows. You can call into the User32.lib and call functions such as CloseWindow (minimize) to manipulate the Windows on the screen. Not sure how you would get about minimizing an execution window inside the parent sequence editor window, but I would think it should be possible. Consult MSDN for more information.