How could I forget DigiKey? I made the mistake when placing an order of saying yes to receive their catalog in the mail. It's bigger than the Metro Yellow Pages. It's like they say, "Here, you throw this away for us..."
I've had good luck and pricing with Parts Express for bulk electrical stuff (wire, heat shrink, sleeving, connectors)
http://www.parts-express.com/wizards/searchResults.cfm?srchExt=CAT&srchCat=400&CFID=5736484&CFTOKEN=60317661
And Digikey has a boatload of stuff if you know very specifically what you need, or need something specialized:
http://search.digikey.com/scripts/DkSearch/dksus.dll?Cat=1442842&k=quick%20disconnect
These match the old vintage Japanese motorcycle connectors and are really close to FJ40 as well. They have kits, refills, high quality crimp tools, etc.
http://www.vintageconnections.com/
I'll second the Parts Express. I've also purchased from another place on-line...I think it was called WiringProducts.com?
E&G Terminal. 6510 East 49th AVE. Commerce City