Im not sure that I understand the problem your having exactly , I can give you a great tip tho..... try using a program like "xpadder" or "joy2key" they are free programs and lets you program any controller as you wish .
for example I have my traps on L2 and R2 ,stars and trimates on left and right d pad, sol and moon on left and right for the right analog .
this will allow your the most custom options when setting up controls , if your controller has any other extra or unused buttons you can program them aswell