Having owned an aircraft paint shop, I have more than average experience with stripping. Strip the entire aircraft. The new strippers we use, ammonia based and "environmentally friendly" one, work well, just take more time to do their job. You also need to use a pressure washer to get it all off with. This does nothing good for partial stripping. Blasting with media can do that, but it presents a whole host of other problems. No, just strip it and paint what you want painted. Just remember, polishing a plane is like having a dog, needs constant attention.
You can zone strip it less aggressively, by doing a part of the plane at once, putting plastic under that part to catch the droppings. You can use a plastic scraper, made from either phenolic, or old scrap plexiglass. You have to dress the edge frequently and the stripper will soften it. So a wing a weekend, left and right of the fuselage and so on. It will take some time.
Actually have my 675 Caravan Amphib at the paint shop as we speak, takes two weeks to strip and get all the edges where you mask off cleaned prior to acid wash, etch, alodine and initial prime. Lots of detail work. Lots of labor. You can see along the float seams where we tape it off the stripper gets under the paint and you get crinkled edges. You mask the seams on the floats, so the stripper does not attack the sealant. That is done manually, with razor blades and Scotchbrite wheels.
