On running the application (and running an application, among other things), Cesium will disable the AppChange hook. When editing a program the hook is used but not restored (which doesn't matter because the flag is zeroed anyway). This breaks some of TI's app functionality, shown below is Transformation Graphing's [Format] menu, which is reset to the default menu when Cesium is entered/exited because the appchange hook is uninstalled, this is not the only thing it handles for this app but is one of the most obvious.
On running the application (and running an application, among other things), Cesium will disable the AppChange hook. When editing a program the hook is used but not restored (which doesn't matter because the flag is zeroed anyway). This breaks some of TI's app functionality, shown below is Transformation Graphing's [Format] menu, which is reset to the default menu when Cesium is entered/exited because the appchange hook is uninstalled, this is not the only thing it handles for this app but is one of the most obvious.