First off I spent an hour looking for this in the forums..

Question I have all the everything but the actual harness that plugs into the fuse box..pretty much I have the power mirrors wired in and now I need to know where the red and green wires that go to the switch get tied into after its been feed thru the door, how I wire from the fuse box to both doors..pretty much making my own harness for the doors and to make the door lights in the bottom corner light up.

 

well, Im going to take a wild guess and say the wires that feed the regulator need to go to power. Whether you wire it to constant power or to switched (ignition) power is up to you, but since this is a custom job - the wiring will be also.

The door lights can simply be tied into the switch in the door jamb. Run the + wire from power, to the door switch, and then to the light. The other wire to the light will just be grounded.