Hello! Looks like you have custom code not provided in the GUI example project, so I don't know what you have done to get your setup. I can only give some general guidance:
Looks like you might be using the NVL screen with a custom dialogue entry background using the "nvl_entry" style perhaps? You could try changing the "yoffset" property for the "nvl_dialogue" style in the "custom_config.rpy" file if that is offsetting the text too low. If you're using a Frame() displayable as the background for "nvl_entry", then you might need to adjust the padding of it.