@cell A lot of english names ended up using Hepburn without macrons, possibly just ones that arrived earlier.

Tokyo, Kyoto, Osaka, Kobe, Kanto, Kyushu, Hokkaido, Shinto, Sumo, Kendo, Judo, Dojo, Bento, Gyoza, Tofu, Shogun, Ronin, Karoshi, Ramen, Sudoku etc.

It's not ideal, but people are generally fine if you put them back in. Nihon-shiki was never an option and people will assume you are trolling if you casually throw out e.g. Toukyou.

Contrast words with short vowels that english speakers often use long vowels on: Tsunami, Emoji, Katana, Sushi, Soba, Sudoku...