Skip the MAF upgrade, you won't outflow it with minimal mods and only a pulley drop. Save your money there.

Headers or a plog/downpipe combo for exhaust. The cheaper headers don't come with a cat converter if you have emissions.

Start with a 3.6 pulley because GEN V's are better than the older GEN 3 superchargers, a 3.6 is like a 3.4 on a GEN 3.

There are no TB upgrades for 04+.

As said above, you'll want a scangauge and overkill seems to be only person selling tunes for 06-07.