You will not use both of the door trigger inputs. Only the "Negative Door Trigger Input" because your car uses ground based door triggers. The other wire is for a car that uses (+) for the door triggers.
http://www.240edge.com/manuals...2.pdf
Door locks use a special circuit using a two-pole relay and a diode. Check this out:
http://64.85.6.129/extrainfo/d...M.pdf
If that seems like too much, you can dig into the driver's door, and tap into the wires prior to the door lock controller. This is a little more conventional way of doing things but you have to feed wires thru the door which sucks.
As far as "ignition input", I'm guessing that you are looking for switched power (+ when the key is on). You mentioned remote-start alarm, so you may be looking for the main ignition wire off of the key switch. Let me know which one you need and I should be able to find it for you.
As far as locations for all of these wires, start in the logical places, then test with a test light or multi-meter. You can also look at this website
http://www.bulldogsecurity.com/
Look up your car and they have a page with locations and wires for all of the different wires you will need.
My final word of advise would be that car alarms, especially remote-start alarms, are very in depth and require advanced electrical knowledge. Very rarely will everything work the way it seems it should. Instructions always suck and the job will require some troubleshooting. Trust me, just did it tonight with my brother's Civic.
I'll help where I can. Good luck!