Does your SBS 2003 have SP1 integrated? If not yo need to disable "Core Multi-Processing" in BIOS. See http://www.intel.com/support/motherboards/server/sb/CS-028321.htm for details.
For blinking orange LED, please check if your chassis fans are connected to proper fan headers, and apply latest SUP with proper chassis selection. If still encountering same issue, check SEL for errors.
Thank you for your kind reply I wanted to say that I managed to solve the problem that worried me.
Thanks so much Antonio
Glad to know that you have solved the problem.