Yoy might want to replace you inner seals if you cooked the outers seals the inners are most likely dead.
They are knock back seals otherwise you will have the same problem again!
I rebuilt all four of my calipers in February on my '04 986S, replacing all the bore seals, pistons, boots and bleeder screws.
If all you are replacing is the dust boot, you don't really need to remove the pistons. Just press the pistons back in and pull the boots off. They have a lip that fits into a recessed area on the caliper, and the top of them fits into a recessed area on the top outer edge of the piston, but the boot is reinforced at those parts and you should be able to pull them right off. Below you will note I caution on the use of a tool with the pistons, but if all you are doing is the dust boots, you can use a dental type tool to help get them out.
If you want to go the full monty, here is way more detail than you asked for :D ....but be sure you read my caveat on doing the full monty below.
You have to disconnect the fluid line on the back of the caliper to inject air to make the piston come out. As such, you should just remove the whole caliper.
With the caliper off, and the brake line dripping into a bucket, use plenty of brake parts cleaner to wash everything down and getting as much fluid out. You don't have to do this, but if you don't, when you apply the air pressure, you are going to splatter nasty brake fluid all over the place. You can remove the bleeder screws too, and spray into those and into the back until you feel like most of the fluid is out.
Then you need some blocks of wood; best to have some of different thicknesses. Place blocks between the pistons so when you apply the air pressure, these things hit something other than each other. And be careful, they come out with significant force.
Use the different thicknesses to get the pistons most of the way out. Then you can pull them out with your hand if you got them far enough out. Don't use any metal tool on the pistons. You can scratch and ruin them.
It is a bit like a puzzle sometimes to figure out what thickness of blocks to use to get all four pistons out far enough at the same time to pull them out, but it will make sense once you start.
Inspect the pistons. If you boots are shot, and you've had a few track days where you were down to nothing on your pads, you will probably find a little bit of rash on the sides near the top. If this is all you have, just at the top, they can be reused, IMO. If they are scored on the sides in a place that would make the scratch go past the seal, then resuing them runs the risk of leaking past the bore seal.
Look into the cylinder and half way or so down, you will see the bore seals - one per cylinder. You get these out with a dental type tool. These are inexpensive and readily available. I've seen them at sears as well as lowes. If you pull the seal out, you should replace it, because you do not want to run the risk of cutting or tearing it at all.
Go crazy with the brake parts cleaner. Clean, clean, clean, clean - but only use brake parts cleaner, or brake fluid itself. NOTHING else in the cylinder but one of these two chemicals.
When you reinstall the bore seals, you lube them with a silicon grease (came with my piston rebuild kits from Brembo - have more if you want the name) like you lube the ring on an oil filter. Then you bend them (because the rings' inside diameter is slightly larger then the diameter of the cylinder, and fit them into the little recessed area in the cylinder.
The pistons go in next. No grease on them.
And then put a tiny bit of the grease on the lip of the dust boots to make them fit easier on the lip of the caliper...try not to get any grease on the outside of the boot though, because it will gum up with dust.
Once all back together, flush your brake fluid, and then bleed them a couple of times too.
I've found my dust boots don't last long. It depends on what tracks I am visiting, but I am watching them more carefully now, and replacing them at least, sometimes twice a year. It seems to extend the life of the pistons because the dust doesn't have as much chance to damage the top edge.
I trust you know the pistons are different diameters.
Full Monty caveat -
Unless you have experience some serious uneven wear,(unattributable to difference in grip in your tires) leaks, or have a jillion track miles, you probably don't need to rebuild the calipers completely. I've done it once in 15K track miles, and the bore seals were only marginally worn.
BTW, someday try pagid yellow up front and black in the back. I get WAY more life out of the yellows, and the blacks, being a little more aggresive, is like a poor man's brake bias. They work nice with yellows upfront. Also, I found better cooling using the GT3 RS brake spoilers.