Does Windows IOT supports CNG/BCrypt APIs?
If possible, I'd like to have some references in case it does support.
It is supported. You can see that API support desktop apps and UWP apps.
But there seems no such UWP sample. You can reference "Encrypting Data with CNG" and "Typical CNG Programming" for desktop and create your own C++ UWP application.
Reference "Developing UWP applications for Windows IoT Core - C++"
Windows IoT Core also supports certain traditional Win32 app types such as Win32 Console Apps. There is an IoT Core C++ Console project template to make it easy to build such apps using Visual Studio.