I still don't know why this is happening, but here is my band aid solution. Hope this helps someone...
In the warmup program:
O1000(LYNX-WARMUP)
G97
M203P11S100
#115=1(SYNC RAN ONCE FLAG) <------------------------------------***
(THIS MACHINE DOES NOT SYNC THE FIRST TIME)
G4P90000(DWELL 90 SEC)
In the transfer program:
O8101(PART TRANSFER OPTIONAL PULL)
IF[#115GT0]GOTO2
#3000=81(WARM UP NOT RUN)
N2
----
Parameter 6001 bit 6 must be set to 1. This does not clear all 100 series macro parameters on every reset, only power on.