The Twilight of the N64 and the Sega Neptune Part 2
Earthbound 64: Similar in plot to the GBA game except a larger world and 3D graphics. Unlike in OTL, the game is never scrapped and resurrected on the GBA and instead the series continues onto the Nintendo Dolphin with Mother 4/ Earthbound 3.
Fire Emblem 64: Unlike in OTL, Yokoi is alive and in control of his team and makes an outstanding JRPG that brings the series into relevance and critical acclaim in the west much earlier than Fire Emblem Awakening on the 3DS in OTL. The series is returning on the Nintendo Dolphin with Fire Emblem Path of Radiance. Released in Holiday 1999.
Super Metroid 64: Another game directly related to Yokoi living in this TL, the game features a similar plot to Other M but since there is no Metroid Prime story line to ignore and the gameplay is much better it succeeds very well in transitioning Metroid to 3D graphics and control. With Yokoi in charge of Intelligent Systems and Sakamoto being supervised better the game is much better executed with much better results. Released in 2000
Super Mario 128: The swansong of the N64 with Conkers Bad Fur Day releasing in 2001, featuring much improved graphics over the original Mario 64, it featured a direct continuation of events in the first game and also featured Luigi as playable as two player co op multiplayer was also in the game. The antagonists were a combination of Bowser and the Koopalings and Wario and Waluigi also aiding Bowser as his incompetent human minions for hire whom cant seem to do anything correctly. The game also features Yoshi as a ride able character as he was in Super Mario World.
Generally viewed as the last great N64 game and a masterpiece akin to how many see Super Mario Galaxy 2 to Super Mario Galaxy 1
So major takeaways, Intelligent Systems is much more relevant with Yokoi still at the helm and has the power not to be directly under Miyamoto's supervision.
Kirby 64: Same as OTL Kirby game but releases Spring 1999.
Kirby Adventure 64: A fully 3D Kirby game not unlike the gamecube prototypes for the Gamecube in OTL. The transition to 3D for Kirby becomes much easier in this TL and a 3D Kirby is released in Fall 2001.
The Kirby series is more active on the Dolphin and alternates between 3d and 2d. With Kirby Air Ride releasing for the Dolphin early on and Kirby Return to Dreamland (similar game as OTL) releasing Holiday 2003.
With Iwata remaining in charge of HAL Laboratory, Sakurai stays as well and the studio does not turn into chaos in this era as in OTL