The following links should help you out with most of your questions:
Basic Proto Guide
Ultimate Sticky
Matrix Owners
Now I'll try to answer the questions best I can, but refere to the link to be sure.
1) You need to get an ASA on it, then you should just be able to air it up and shoot it no problem.
2) You can use Dye's Lube, Dow 33, Slick honey, or Matrix Muck, its pretty much preferance, and a lot of people like Slick Honey.
3) You should relube the bolt as much as you can just to make sure everything is in perfect condition. Some people lube everytime before they play, others lube every once in a while, accordingly the guy who lubes before he plays will generally have his gun in better condition.
4) Dwell is how long the solenoid is activated for. Refere to the basic Proto guide to learn how to change it and stuff, although out of the box it should be fine.
5) Refere to the Ultimate Sticky as it has instructions on how to clean and lube the ref the correct way. You should be able to use the same lube as you did on the bolt, but some people use two seperate lubes for the different parts.
6) If you lube it after ever 10,000 shots or so, I'm pretty sure you will be keeping it in good condition.
7) LPR is low pressure regulator. Leave it alone until you know more about it and then search around to find the propper way to adjust it.
8) Upgrades kind of depend on what you want done first and thats always preferance. What I would do is:
ASA (required for the gun to make it shoot out of the box)
Barrel
Feedneck
Trigger if you'd like
Anything else you want to do to make your gun unique or to make it fit your personal preferance.