Searching through the forums there are a ton of references to an on going issue when templates are created these feature numbers not reseting themselves. I feel either place a command/function that allows users to reset these numbers in the templates or fix it so this is not an issue.
This is the latest thread on the topic.
http://forums.autodesk.com/t5/Autodesk-Inventor/Resetting-first-Sketch-to-Sketch1-in-Template/m-p/43...