On the new Bachmann Climax there appears to be two yellow capacitors on the board. One on the fireman's side right next to the plug and the other one is on the engineer's side about midway on the board. Which one do I cut or do I cut both them.

Cut both capacitors. For more details see the Bachmann Spectrum Baldwin 2-8-2 Decoder installation or another F.A.Q. topic for that situation here