Saying that using comic style stocks is harder for signatures because some effects don't fit, is a pretty much 'bull****' argument. Some effects won't fit with 3d renders either, some effects won't fit with realistic stocks either. You need to expand your creativity and find effects that DO work with whatever style render you are currently using. When something doesn't 'fit', you find something else (through the means of, for example, a tutorial). When you are saying "It's harder, because some effects don't fit", you are actually saying "All the effects I know of, don't work with this signature" ---> that doesn't mean the render is harder to use in a signature, that means a new learning opportunity has shown up for you. You should take advantage of that, to learn new stuff.
Don't fall in a vicious circle where you keep trying to apply the same effects for every stock and render, but force yourself to explore, experiment and learn from new opportunities such as these.