If you don't have an adjustable and comfortable chair, buy one yourself if your company refuses to provide one for you, though I would probably leave a company like that.
Pick a comfortable keyboard with a handrest.
If you have a second screen, don't keep it on the same side all the time, or put it above your normal screen or you will eventually develop neckpains due to always looking to the side in the same direction.
Try to do some hand exercises like these if you get pains in your wrist.
If you have a raisable desk, stand at your desk instead of sitting a day a week or so.
Get a soft movable wrist rest for your mouse, movable so that you can place it under your elbow if you start feeling pain there.
Keep your monitor at the right height so you're sitting somewhat straight when you're in your chair.
Also, if you have glasses, there are certain coatings for the glass (like anti-reflective) that makes working with a computer all day easier.
Make good use of your company massage therapist and ergonomist if they have any.
Great list, but one complaint: if it hurts, it may be too late - the damage is done. Prevention is the key here. – chris – 2009-10-08T22:18:12.690