You can disable this completely in the advanced arcmap settings. You can access them in the arcgis installation folder in the utilities sub folder. This reverts arcmap to a 9.3 style of editing: tool+ task + target and removes the feature template window.
To my knowledge the only way to do this (I have seen it done for pre-10 language settings and a citrix implementation) is to make a custom exe, that changes the registry first then launches ArcMap second and resets the registry value. This is more or less what I am doing now, users want to launch arcmap from another application so I have the opportunity to change the registry key before I do.
How do you disable your application for other users on the citrix server? In my experience, ArcMap is such a resource hog that putting it on a citrix environment leads to performance problems, basically as soon as you have more users than cores on the system you get slow downs and resource contention.