I've been promising to send some information on types of places to stay in Chania. Here are some sites to pique your interest!
At he top of the mountain. Relaxing 'agrotourism' in a hotel steeped in history. I've stayed here and like it very much. The people there are fantastic. The organic food is gourmet.
This hotel is only a couple blocks from the harbor at Chania with the entire cafe's lining the coast. But Ionas Hotel is tucked away so there is no noise problem. They are often a nice breakfast buffet, simple and healthy, lots of variety. Friends have stayed there and it is wonderful. I want to stay there someday!
Here are some sites I found on www.CreteExplore.com to help you get started!
Have fun dreaming and planning!