When I save my updated script that is part of an add-in, the add-in tools automatically save a backup for me with a number after it. Are the updates you have made in the version of your script that the add-in is using, or are the updates in one of the backups? For one of my add-ins, I realized my updates were not in the current version the add-in was utilizing. I haven't had time to play around with it to fully understand what is going on yet, but you might want to compare the code in your backup script and the "current" version.