Just seen your post, and I guess I could give you a few tips.
Probably sounds dumb, but I've never really stayed in hotels in CH
No, seriously, most villages have a number of 'Ferienwohnungen' which is like a holiday flat. You get a bed, kitchen (usually together) and you go pee in the hallway with everyone else. Well, not actually in the hallway, but in the WC located there
These type of places are the cheapest, with a 70's decor and around CHF50/night, but for a single night, you might be pushing it, as well as understanding English.
For just a single night you will have to go to the famous B&B, and they are everywhere. This will set u back around CHF100/night for 2 people. here
is the link. Usually there is the sign 'Zimmer Frei' hanging outside, and for B&B you can some English out of them.
Then of course you get the 3*** Hotels and up. Prepare to pawn your bike to afford these places. For some stupid reason, the pricing is always per person per night. You will lay on the table about CHF150/night x 2 = CHF300.
Other Notes: The most popular area for bikers is Graubünden (East CH). This is where places like Davos, Klosters, St Moritz etc are. In summer, it gets very very busy. Going up and over the passes is like a 50km line of bikes, all doing various speeds. That is of course not counting the tourist coaches, cars, trucks, tractors, cows roaming the streets (I kid you not!), mountain bikers, hikers etc
You seemd to have picked the right time, because it is not yet crazy busy. The Gottard Pass is spectacular at moment, due to the incredible snowfall during winter. Last week there were 10m walls of snow at the top of the pass. They took weeks of ploughing (actually snow blowing) to get to the top. With the highpowered equipment, the best they could do was 1km per day....
Not sure what you know about here, but some suggested passes (no particular order):
Susten, Klausen, Grimsel, Furka, Lucamangna, Splugen, Bernina, Stelvio (highest pass in EU; 2800m), Simplon...etc. If you want to go through 3 (AU, CH & IT) countries in the space of 3 hours, zoom around the Stelvio.
GTConvert is a Western CH expert, look around the Riders Tales, and he did recently a tour in the East of CH into central part as well.
Hope this helps.