Echoing Andrew's experience, i removed the first and 22nd frets on my explorer to drill guide pin holes when I stripped the fretboard to perform some minor(major) neck tenon surgery (Butchered Hack job) using a thin bladed flat probe. its doable, its nerve wracking but with care and an easy does it touch you should be okay.
Or you can outlay for the fret board protectors and fret stripping pliers from StewMac and save your nerves. It may also provide you with a much cleaner result for the refilling of the slots with your chosen medium. would probably save you a butt load of time in the actual defretting operation as well.