no they dont have lugs on the end, im guessing they have been cut off. they are the only wires on the engine which do not go anywhere.
also they are on the wrong side of the engine to link to the alternator. confusing stuff
Then they are are ignition wires (wires that come 12v when IGN is ON).
I can't remember where they went on my 6mge, as its been a while.
As long as the alternator wire that gets bolted on is on there, and the other end is connected to the battery, the rest doesn't matter.
Its only indication lights.
EDIT: Unless it has some sort of safety mechanism with the other wires.