Overriding inc-files and plugins

Hi!
You guys have been quite diligent that made us tons of usable code, in the forms of plugins and what not. And I thank you!

I have changed the name of the "Menu" content type to "Dish". But there are som hard code stuffs that I sometimes need to deal with, e.g. the restaurant_menu.features.menu_links.inc and other plugins. How do I deal with such things when overriding them?

I'm not a coder but copy paste is manageable. So, please, explain it to me in a gentle maner! :-)