My garage isn't as big as yours, (24X30) and we stick framed the roof and installed 3 dormers. This gave us a walk around capable upstairs with wall to wall space for storage and you won't regret having lots of storage, trust me. We also installed our 220 compressor upstairs and the reduction in noise was dramatic. I'd run 220 outlets to all 4 sides unless you have a big ass extension cable and like using it. We also put windows in that we bought from a local manufacturer who had a whack of windows that had been made to wrong size initially, but since we were building from scratch, who cared and we put the 1/3 priced windows in their appropriately sized framed holes. Put at least 8' doors in and we built it R2000 style with 2X6 walls for good insulation. Don't cheap out on lighting, either. We have 8- 4' 4 bulb fixtures in the cieling and 2 more over the bench. Plumb it for water using PEX or Wirsbro and don't worry about it freezing let alone ease of solderless installation. A drain in the floor is one thing we thought of too late and anchors for a lift or pulling/tying down might be good as well. See, isn't it easy to spend your money? LOL Good luck! 
Those are some great tips Jimynick, thank you! I'm doing 2x6 stick on the bottom and having trusses made for the attic which include the engineered beam, so it will be clear span in the lower level which will be a little over 13' tall. But since I'm using a gambrel roof to match the house I lose some space on the side but I'm hoping to use those areas for storage like you were talking about. And I will end up with 18' room all the way down the 36' with an 8' ceiling. And I'm planning the 2 garage doors to be 10'x10'.
Putting the compressor upstairs is an excellent idea, I hadn't though of that but it will definitely be happening now. I will definitely be putting 220 outlets that I can reach from every bay, though I'm not looking forward to paying for that much 4/6 gauge wire.
As far as lighting I'm debating about using 150watt equivalent bulbs in standard 4" round fixtures offset every 5 ft or go shop lights. I like the 4in rounds because you can put one in including the box, light and fixture for less than $7. and I can expand them pretty easily. It basically comes down to cost, because for some reason I don't value my time haha. My goal is between 80 and 100 lumins per SF. I'd probably set them up for 2 switches, each one controlling every other row.
I was planning on using pex but I hadn't realized it was freeze resistant, good to know. I'm also planning on putting a t-with a valve in my basement on the water supply to the garage so I can drain it in the winter.
Anchors are an interesting thought, might have to put some on the beams over head too.
And you are right, its super easy to spend money haha. Thanks for your input!
