I picked up the SDHQ upgraded brake lines recommended by other 'mud users. Probably not necessary, but worth it for me.
There is a spring loaded fastener in the emergency brake that is easy to dislodge when removing rear rotors. It is a sub-dime sized disc with a slot that engages with a post tab to retain a spring:
If the disk pops off, it is very helpful to have the special tool to reinstall it. It isn't a toyota special tool, and should be available at large auto parts chains. Mine has a screwdriver type handle with a funky end. Something similar to this:
Also, if you grab some long-ish (50mm?) M6 fully threaded bolts, they can be useful for removing rotors that get stuck to the hub. You'll see two threaded holes in the face of the rotor that you can screw them into and it pushes the rotor off the hub without drama.
I believe Toyota recommends new caliper bolts (although many people reuse them).
Grab new brake hardware kits, front and rear, unless they came with your replacement calipers. The Toyota full replacement calipers come with this hardware installed. Refreshing the pad sliding surfaces will be worthwhile. On that note, be sure to remove any corrosion under the stainless slider parts (a stiff wire brush should be sufficient) before reassembly.
Have a container of high temp brake grease so you can clean and relubricate the rear caliper slider pins in the boots. A container will last years and many brake jobs.