For bars, resto, and a lot of clubs and adult night life, Shinjuku is superior. It's the best place to stay in Tokyo due to accessibility. My favorite park is also in Shinjuku. For famous landmarks, coffee shops, and shopping, Shibuya.
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Shibuya trends a bit younger, but Shinjuku is equally happening at night. Note that you have more hotel choices (including generally cheaper ones) at Shinjuku compared to Shibuya.
The areas with the largest number of crime incidents, namely Shinjuku, Setagaya, and Edogawa, are also areas with a comparatively high population. Likewise, few people live in the low-crime areas of Bunkyo, Meguro, and Arakawa.
Shinjuku Station, meanwhile, is widely believed to be the world's busiest train station. Literally millions of people pass through the station daily. Thanks to the red-light district, Kabukicho, Shinjuku is known for ~sexy~ nightlife, hostess and host clubs, and love hotels.
There are really no really no go areas, even red light areas of Kabukicho in Shinjuku have tons of tourist visiting nowadays, crime towards visitors are low, the only real way you get into trouble is if you are looking for trouble yourself.
The lively hub of Shibuya is arguably the youth heart and soul of the city, and unmissable if you're visiting the Tokyo area. With world-famous sights including the iconic scramble crossing, this area is a must-see for nightlife and trendy youth culture.
Yes it is safe (the same as most of Japan). There are really no really no go areas, even red light areas of Kabukicho in Shinjuku have tons of tourist visiting nowadays, crime towards visitors are low, the only real way you get into trouble is if you are looking for trouble yourself.
It is 3 to 4 kilometers from Shinjuku to Shibuya, so I recommend you to travel by train or taxi. The fastest way to move is to train, but both Shinjuku Station and Shibuya Station are very large terminal stations, so it takes time to move from station to destination or from the station to the destination.
Harajuku (?? in Japanese) is a station located between Shibuya and Shinjuku on the JR Yamanote loop line around central Tokyo. Many people get off the train at Harajuku Station to visit such popular spots as Yoyogi Park, Meiji Shrine and Omotesando, a boulevard of luxury brands and other high-end shopping experiences.
If you're young and adventurous you might like Shibuya more. If you are around retirement age perhaps you might prefer Ginza. But it might depend more on actual hotels.
The daytime hustle retreats, replaced by a nocturnal allure that captivates night owls, adventurers and insomniacs alike. Shibuya's nighttime offerings are both a visual and sensory adventure, from quirky bars nestled in hidden alleyways to panoramic views of the city lights.
Right to the north from Shinjuku station and to the east from Seibu-Shinjuku station there is Kabukicho district, which is an enormous district with what most people would consider the red-light kind of entertainment. It has also a large love hotel area, which is, however, notorious for its numerous incidents.
Nishi-Shinjuku, west of the station, houses a forest of skyscrapers, while the east side is your access point for shopping, dining and entertainment. Bathed in neon, the area of Kabukicho is a maze of hotels and spots for nighttime revelry.