I was able to HARDWIRE a ipod into the mach 460 using an AUX BOX made by PAC. I had to buy an adapter that plugged directly into a port on the Mach 460 head unit...it was bascially a slave 6 disc changer port..the aux box plugged into that, which had RCAs coming off of it. I then used a Monster RCA to 1/8 inch stereo plug, that connected to the ipod (actually it connected to the belkin charger, that plugged into the dock connector of the ipod).
You press "CD" twice, and it comes up to a 2nd changer mode...and it basically is quiet..until you hit play on your ipod. Crystal clear sound..I loved it.
I still have the gear for my mach 460..may work for the mach 1000.. I might be able to sell to you at a great price...or steer you the right way in getting yours to work.
FM Modulators never sound as crisp as a direct hardwired connection.