If you want to do more than just going out for an easy run there are some good options available.
Track runners might like Oda field and Tokyo Metropolitan Gymnasium and those looking for a hill workout can go to Around Akasaka Palace or Around the Emperors palace.
If you want to run after sunset or early in the morning Yoyogi Park and Around Akasaka Palace should have electic lighting.
Yoyogi Park is a popular place to run in this area.
Those looking for a flat course with firm surface can go to 1km around Yoyogi Park.
1km around Yoyogi Park
Oda field | Tokyo Metropolitan Gymnasium | University of Tokyo Komaba Campus