If your really serious about storage, find an aircraft manual online or go to your local small aircraft airport and pick up the storage procedure.
Here is what has been recommended to me for winter storage by the aircraft guys.
1. Add fuel stabilizer to the gas in the recommended ratio. Run the bike until you have the mixed gas in the carbs or fuel line. Once that is done, drain the tank, bowls or fuel rail. If it is a metal tank, you can buy fuel safe corrosion protectants or use fogging oil. DO NOT USE WD-40 for any components during storage. It will flash off and remove any oil that is there.
2. Drain and refill engine oil with equivalent or better grade. Marine oils have additional corrosion preventatives and will be a better choice. DO NOT START THE BIKE! Any engine running after this point will lead to moisture in the engine. Remove the plugs, and crank the engine until you have oil pressure, this pushes the new oil, through the oil filter. THEN change the oil filter.
3. Pull the plugs, spray fogging oil into the cylinders and rotate engine until the entire bore is coated along with the rings. Re-lube the plug threads with anti-sieze and reinstall. Use dielectric grease on the plugs, boots, and any connections you can find. Remove the battery.
4. Spray fogging oil into the exhaust, then apply 1 mothball per tube or muffler. You may want to hang the mothball, so you can remove it at the end of storage. Use a rag or canvas with a rubber band and secure it over the exhaust. Do the same on the intake, with the oil, mothball, and rag, except add a 1-2 lb bag of desiccant. If you have a paper filter, remove it completely. Leave nothing paper or thin plastic (map coverings) for the mice to chew on.
http://www.theruststore.com/Moisture-Control-C6.aspx
5. Lube all hard points with grease. Apply chain wax to the chain, and remove the brake pads. Your tires will need to be replaced after 3 years, so don't worry about them. Spray the entire bike down with a storage oil. Waxes DO NOT WORK long term.
http://www.kanolabs.com/
Weatherpruf is a good one. There are also commercial aircraft grade storage "oils" made for this purpose.
http://www.theruststore.com/Rust-Preventers-C4.aspx
Let it dry, and it will leave a film on the entire bike.
You will get this on your brake rotors which will need to be cleaned thoroughly with acetone before you ride the bike again.
6. Put the bike up on center stands to remove weight from the suspension. A spool stand in the back and front axle stand is NOT good enough. You want to lift the bike off the suspension. When the bike is in its storage spot and up, spray the shocks again to make sure all exposed metal is covered.
7. Cover the bike with a breathable cover, cotton, canvas, or commercial equivalent. Apply liberal mothballs on the floor underneath the covering.
Walk slowly away from the bike. Its ok to cry a bit at this point.