In CodeWarrior IDE, please don't use JTAG configuration file to override RCW on the target board. Because the JTAG configuration is only used for the demo board, you need to customize it.
The simple way is to configure the switch settings on the custom board to configure the target board as hard-coded RCW. Then use CodeWarrior to connect to your custom board.
If your problem persists, please send the the following CCS commands result to me to do more investigation.
After configuring the target board as hardcoded RCW, and open the
CodeWarrior Connection Server from
C:\Freescale\CW_PA_v10.5.1\PA\ccs\bin\ccs.exe and type the following
commands.
(bin) 49 % delete all
(bin) 50 % config cc cwtap
(bin) 51 % show cc
0: CodeWarrior TAP (cwtap:10.193.20.66) CC software ver. {0.0}
(bin) 52 % ccs::config_chain t2080
(bin) 53 % ccs::reset_to_debug