After “only” about 18 hours of work I figured out all the issues with using the split amalgamation on the iOS. Soon I will have a new DspFilters with a single XCode project that correctly targets all environments (Mac 32/64, iPhone, iPad, iPod) and includes the entire juce source tree contained within 5 files (since having it in 2 files blows up the compiler).
The script I posted is not quite sufficient to produce a compiling amalgamation but I"m going to sleep now. Tomorrow I will describe the problem and see if Jules can come up with a quick fix.