No I did not try using the stock speakerwire, however I am using 12 guage wire for the speakers. I did not want to cut my speaker connectors off just in case I ever decide to sell truck and put stock system back. My carputer system is 100% totally re-wired. If your new speakers sound good with the stock wires than I would leave it alone. I hope to have pics off my install up this weekend, you will see how I ran my new wires. I only had to drill holes for the rear doors. The front had exisitng holes.
What sub box did you go with? I used a qlogic, but I may be having someone build me a custom fiberglass box for my JL10w3v2.
My system is working great, no problems since its been done for about 3 weeks.