Originally, Rare planned to include an additional mode called "Bottles' Revenge" in which a second player could play as an undead version of Bottles and take control of enemy characters, including bosses, to hinder the duo in their quest, with the players swapping roles if the enemy character managed to defeat Banjo and Kazooie. The idea was ultimately scrapped because the developers ran out of time to debug controlling bosses, despite admitting that "it did work rather well;" the only boss that was controllable when the mode was scrapped was the second world boss, "Old King Coal." However, it later served as the inspiration behind the "Counter-Operative" multiplayer mode in Perfect Dark. The developers also planned to implement a feature, called "Stop 'N' Swop", that would have allowed data to be transferred from Banjo-Kazooie to Banjo-Tooie so that players could unlock additional bonuses in Banjo-Tooie. However, due to hardware limitations of the Nintendo 64 system, the feature was ultimately dropped. Despite this, Rare resolved to include some of the planned bonuses within the game. The Stop 'N' Swop feature was later implemented in the Xbox Live Arcade re-release.
