Booked this hotel based on the great comments here. It was my first time to travel to Japan, and I saw the popular reasonable priced hotel, from their pictures, they seemed old-fashioned and very small, so I was very hesitant.

The hotel is just a little bit hard to find, it's not as hard as other people say if you prepare well in advance, but it's not like it's on a main street or close to subway like some of the other hotels in Shinjuku.

During my trip I stayed in HVF Shinjuku & Sunroute Plaza Shinjuku, to give a better idea, here's the comparsion of both hotel

Location:
HVF: takes about 8-10 mins walk from the main railway, you'll have to pass through a few different small area to get to the hotel
Sunroute: it's right above the Keio line which is useful for me since I was taking the train back to the airport and I didn't have to walk far with my heavy luaggage, it's also only 1 and a half block away from the Shinjuku JR Station.

Room:
HVF: room is small with quite large bed, bed was comfortable, but since the large bed, there's not much room to do anything in the room. I have to give great compliments to the bathroom though, it's almost as big as the rest of the room. The toilet & the bathing area has a door to separate, so it's good if you're taking a long bath & someone has to use the bathroom. The bathing area has a bathtub and what was really great is there's a big shower area next to the bathtub, they gave this little chair to sit on while you're taking your shower, i think that's a nice experience of how Japanese lives and I didn't even want to go out of bathroom!

Sunroute: The room is small and the bed is small too, so there gives just a bit more room to move around. The room design is simple kinda like a business hotel, although the bathroom is old with the white walls turning yellow. It's not bad, but I'd prefer the room for HVF.

Others
HVF: It's a small boutique hotel, so don't expect it'll wow you, but it gives more than what a "real" hotel can offer you, they even offer free sandwiches for breakfast which taste awesome! If you don't mind the walk, it'll be a preferred choice as I believe the price is cheaper.

Sunroute: It's very convenient and great value for the hotel. Considering the price, it's newer and more comfortable than other hotels at the same price range.

Coming month, I'm going to Tokyo again, I choose to stay in HVF than Sunroute because it's a bit cheaper, and although the room is pretty much the same size, since the bed is bigger it gives me a more comfortable sleep.

Very nice simple hotel without any excessive luxury. We stayed here for two nights and we had a nice room with a very nice Japanese style bathtub. Even though the rooms are small, which they might be in any other place as well, the bed was very comfortable and the breakfast we got served in our room was quite tasty as well.
I would recommend this place for anyone who wants to go to Tokyo and doesn't want anything too fancy, but still would like to enjoy some luxury.

The Villa Fontaine is an easy hotel for a short stay in one of Tokyo's busiest spots, with fast accessibility to the rest of the inner city.

The hotel itself is no-frills - no onsite restaurant, no room service, a very basic breakfast that you eat in your room. There's no sense of the hotel pampering you. On the other hand, why would you want to be cocooned indoors with the wild variety of food and drink, sightseeing and entertainment just streets away?

Based on previous reviews we chose a superior room, and it delivered - large (QS) bed by Tokyo standards and comfortable (important for my 6'2" partner); a really good bathroom in the traditional Japanese configuration (wash/shower followed by a deep bath for relaxing). There's coffee-and-tea facilities, and a small bar fridge. TV is local, but you can buy access to a good selection of movies with a pay-as-you-go service. The rooms are quiet, with little to no interference from neighbours or outside.

The high-speed LAN is great if you have a laptop (we did) and it really is free (no half-hourly logins, or other conditional access).

The hotel is located smack in the middle of the red-light district, surrounded by love-hotels and bars, but we never felt our safety to be compromised. JR train and subway stations abound within just a few convenient minutes' walk. It meant we could easily adjourn there after a day's sightseeing, to freshen up before heading out for the evening.

Immediately near the hotel (1-3 streets) are an abundance of typical Tokyo eateries - ramen, yakitori, katsu restaurants and others, as well as a burgeoning Korean quarter to the south, so be adventurous. If the immediate area is a bit too seedy for you to hang out in, walk a few blocks north and west - you'll find high-end shopping options including Isetan, and excellent restaurants and bars close by.

The hotel staff were friendly and efficient, and spoke more than enough English to help you with basic needs including location maps, arranging taxis, etc..

As multiple-time visitors to Japan and Tokyo, overall, it was a good experience for us.

My husband really wanted to stay in Shinjuku pon or last trip to Tokyo, and we found this place at a decent rate so booked it. It was a 8 minute walk from Shinjuku station through lots of hustle and bustle. Staff was friendly and helpful ( note they don't take cards, which should not have shocked me.) Room was funky and very clean, TV was nice and big, and the Bathroom I could have actually taken up residence in... I have traveled many places in Japan, and I must say for Tokyo this was a big bathroom. We had a shower area and a huge deep bathtub that I definitely luxuriated in. As well the toilet was a good 3 steps from the bathroom door, as opposed to being at the door which does happen in many hotels. Shinjuku is a nice place to stay as well if you want easy access to the city and Shibuya. It is also a perfectly safe area. It is also very quiet for being in the middle of Shinjuku, but it is a couple of streets away from the busiest areas. there are also thousands of bars, clubs, restaurants, and the like all around you, so if you are going for nightlife than this is the place for you (although a good portion of the entertainment is more pointed toward Japanese people,specifically Japanese men). Overall cool place to stay, and easily accessible.