Nihon-Kotsu https://www.nikkotaxi.jp/en/sightseeing/
Hinomaru Kotsu https://hinomaru.tokyo/kanko
Ebisu-ya - Asakusa http://ebisuya.com/branch/kaminarimon_shafu/
Some shafu (the person pull the cargo) can speak English.
Hato Bus English Tour https://www.hatobus.com/
Cycling Holiday Tokyo https://www.cyclingholiday.tokyo/pm
Tokyo Bike Tour http://www.biketourtokyo.com/
Tokyo Bicycle Tours http://www.tokyobicycletours.com/
Y&Y Cycling Tours Tokyo https://cyclingtourstokyo.com/
Soshi's Tokyo Bike Tour https://www.tokyobiketrip.com/
Tokyo Great Cycling Tour https://www.tokyocycling.jp/
Emperror garden https://www.japan-guide.com/e/e3018.html
It's near the Tokyo statioin. I haven't gone to the garden, though.
Tokyo station - Yaesu side https://www.tokyoeki-1bangai.co.jp/pdf/floorMap_foreign.pdf