I noticed you've been a member for a few years, so the first thing I'd have you do is make sure this is a fresh installation of NTLite, so that we can eliminate all potential variables, such as having an outdated version, a messed up settings file, or anything else that could be problematic. Also be sure to activate your license again after installing NTLite.
What your describing with the component removals and those options from the menu that runs vertically along the left side are all saved into an XML file, which is called a "Preset". The XML file is created automatically after every time you process an image, and it's saved in a menu on the right side that has a prefix called "Auto-save". You can right-click on those for more options.
NTLite also asks if you want to import a previous Auto-save XML whenever you load an image, unless you disabled that option in File > Settings, which is why I want you to start with a clean install of NTLite because I have a feeling you're working on an outdated version and/or you modified it so all the help tips are disabled which explain these things.
To import an XML you must first load a Windows image, then the menu bar at the top changes over to the "Preset" tab where you can click "Load" on the top left. Also you can load the XML's listed on the Auto-save preset menu on the right side.
To export an XML, you must first load a Windows image and also change something, such as selecting a component to remove, then you can click the "Save" button from that "Preset" tab at the top left and it will save it to an XML file.
Read through the following guide for more information.
1) Guide: Choosing a Preset (
link)
2) Guide: NTLite for Beginners (
link)
3) Guide: Installing Windows (
link)