I have some first hand knowledge that some companies are patenting things related to bitcoin, and probably much more I dont know about.
Thats another reason to want to be cautious about side chains and all this blossoming innovation. Every new improvement creates new openings for patents. If it is broken, then by all means fix it. But if it isn't broken, it might be best to leave well enough alone and let the patent clock on the existing methods run out.