Seth,

Keep in mind that the model for the baseline building requires heating
and cooling for conditioned spaces. The boiler room itself may qualify
as a semi-heated space, which will change the cooling requirement. Take
a look at Appendix G of ASHRAE 90.1-2004 for details.

The huge process load will definitely make it hard to reduce the overall
energy consumption. You may be able to limit the process load in the
model to 25% of the overall load. Take a close look at the LEED-NC
Reference Guide. Good luck!

Sincerely,

Keith Swartz, PE, LEED(r) AP