Minecontrol and other self-signed Java apps are getting blocked! This app requires the extra bit of privileges to talk to your gamepad and save button mapping settings. The latest updates in Java (JRE 7 update 51+) are now blocking apps needing these extra permissions from running by default (unless they are signed with a certificate that costs hundreds per year to use).
To go back to Java’s previous behavior on Windows (warn you that you’re going to run Minecontrol):
1. Go to Windows Control Panel
2. Go to Programs -> Java Control Panel
3. In the security tab, lower the default back down to Medium.
In an upcoming release I hope we can work around these security blocks that prevent a good experience using Minecontrol.