Look at any Fire Emblem and Kirby title as an example. The Copyright notice is always "©20XX Nintendo/INTELLIGENT SYSTEMS".
Intelligent Systems is a branch of Nintendo's in-house development teams, so it's really just another name for Nintendo.
HAL Laboratory is independent. They came up with Kirby and Nintendo financially aided them.
Both of your examples date back to the early 1990s. That's three decades ago and hardly indicative of how Nintendo does business now.