I wouldn't worry about the valve cover gasket unless it is leaking profusely - and an Autozone or O'reillys Auto clerk would probably change your air filter for you for free if you buy the part there - $20 - just an idea - it's really easy to do. What do you need the throttle body cleaned for? You shouldn't need it - the brake and power steering flush seems good - but be sure they use recommended fluids in the manual - I believe your power steering fluid should be "ATF" - Automatic Transmission Fluid - NOT power steering fluid - check the manual. Most shops don't pay attention to the manual.
You can replace all shocks and springs for about $325 + labor - via KYB shocks which are essentially OEM shocks - I have a post where I show prices for a 4wd rig - 2wd components are below. You can get an alignment, at Toyota, for $89 + tax last I checked. Toyota Service Dept. would probably install your shocks and springs for 2-4hrs of labor, with you providing the parts - may be worth a call to their Service Dept.
You are far better off, buying the parts yourself and then having a shop install them, provided they don't have a problem with that - labor should not be more than 2-4 hrs for changing all shocks and springs - no matter where you go. KYB Shocks & Springs from RockAuto are about $325 shipped to you if you use a discount code of 5% which can be found via a google search :
Wolverine, do those front coilovers come assembled?
If so, then Ambie, this should also reduce the labor costs as well. The job would become remove the old coilover and replace with the new rather than remove the old coilover, compress the spring, remove the old shock, replace with the new shock, decompress the spring then replace the coilover.
And there should be no labor charge to replace the engine air filter. The tools needed are opposable thumbs and about 60 seconds of spare time. Any quote for an air filter should be parts only.