Sue,
My company just finished up our second surveillance audit to ISO/TS 16949. We, too, are a "small" manufacturing company and I asked our larger automotive customers pretty much the same question you asked. Their response was, basically, not to throw out the "PPAP - Third edition" AIAG manual (do I have any documentation of this - of course not). If I didn't continue to follow those guidelines (plus their additional requirements), my PPAPs would be rejected. As db said, the requirement is that you "SHALL conform to a ... process approval procedure recognized by the customer" (and don't forget that it "SHALL also be applied to suppliers.").
After all that, we did not have to change our S.O.P. during the "conversion" from QS to TS as it already addressed the "PPAP manual".
Bill