Hotel Recommendations in Prague

If you want to be close to the train station, the Falkensteiner Maria is excellent.

If you want to be close to Old Town then the Hotel Ventana **** is about perfect and one of the nicest places we have ever stayed.

Check out the Hotel Imperial. Vaulted ceilings. Double room-doors. Good location. I stayed there in 2003.

The Rick Steves Eastern Europe guidebook is excellent. Just got back and stayed in Prague @ 2 places recommended - both great:

• Dum u Velke Boty - just outside of the busy tourist area, but easy walk to Charles Bridge. Very helpful and accommodating staff Comfortable and quiet room.
• Hotel Adalbert - stayed there our last night because is closer to airport and we had a very early flight. Very peaceful and relaxing setting. We had an extremely large, comfortable, and competitively-priced room, and wished we could have stayed longer. The tram to the city center is right outside the entrance, only a 10-15 minute ride, and very easy to use.

I just stayed at The Iron Gate on Michalska and it was absolutely superb in every way, they even upgraded my single room to a lovely spacious suite. Free breakfast, charming inner courtyard for dining and drinks, helpful front desk night and day, quiet little street but just steps from all the action in the main square and other areas.

We just came back from 4 nights in Prague at the RS recommended Hotel Julian. We loved it. We had a huge room with a nice bath, the breakfast was great. Our room was quiet. The front desk spoke great English. There is a roof terrace. They arranged our pick up and drop off at the airport for a reasonable price. The bed was comfy. We even ate at the onsite restaurant one night. Very good, authentic Czech food.
We could walk places if we needed. We were right next to Petrin Park. There was also a tram stop right around the corner that we used frequently. As you can see, we didn't have any complaints.

Green Garland
http://www.uzv.cz/about/
Close to clock and bridge. Our room for two persons was a big room. No lift. Continental breakfast is on the plus side in terms of offerings (more than just coffee and a bun). Rates very seasonal dependent with very good rates off-season.

I would look at Booking.com and check their map ,you can make choices based on location and price, once narrowed down on that basis you can start looking at the reviews.
I have stayed in numerous hotels in Prague over many years but most of the places I stay in tend to be away from the city centre as you get much more bang for your buck.
My next trip I am staying at the Hotel International in Dejvicka (Prague 6), ideal for me and I got a really great deal through Booking.com but maybe a bit far out for first time visitors to the city.
http://internationalprague.cz/en/

If you haven't booked your hotel accommodation yet, I strongly recommend the Hotel Maximilian in the Old Town (and very close to the Jewish Quarter). I stayed at the Hotel Maximilian for a total of 9 nights last year, and I absolutely loved the hotel. I felt the Maximilian is very charming and cozy, and stylish all at once. The Maximilian was a home away from home for me. Here's the website...

http://www.maximilianhotel.com/

September is usually survivable without AC. But every summer is worse and worse. I made that mistake that I booked a hotel without AC. It won't happen again. No sleep. Every half an hour cool shower and then wet laying on the towel. AC was not a necessity there some years ago. But times changed.