kiran,
I can't speak for the CodeWarrier tools as we don't use them in house.
Freescale provides a flash programming utility for download on their web page. Go to
http://www.freescale.com and search their site for the string "M54X5EVBUPDATER." I found it about 2/3 of the way down this page under the title "Programmers":
http://www.freescale.com/webapp/sps/site/prod_summary.jsp?code=M5485EVB&nodeId=018rH3YTLC00M9
Internally, we use that to program dBUG and the LogicLoader on to the device. It should work for your application as well.
Hope that helps,
--mikee