I mentioned the LP case, and they mostly went after those that monetized videos and put a quote from Nintendo showing their goodwill to others using their IPs for free. As for the second case, read Nintendo's legal section carefully: Nintendo never specifically says in their legal FAQ that emulators are illegal, just that they are a big threat to IPs because they CAN play pirated software. They only specifically mentioned downloading ROMs from the web as illegal, NAND dumps they didn't acknowledge. The legal writer over at Nintendo did a great job at getting the reader to think that emulators are illegal (to avoid them) without actually saying it since emulators alone are technically legal, and it's reasonable for them to do such as emulators, again, can play pirated software.
Ultimately, Nintendo is one of the more permissive companies and welcome other people using their intellectual property for non-profit "enjoyment and challenge". If you really want to see copyright paranoia, check out Square Enix. Regular takedowns of free AMVs with only their game footage, C&Ding any fanworks they come across (look up Chrono Trigger Resurrection), and more.