Bis-amine (two amino groups??) will retain strongly on Primesep 100 column and is not eluting from the column with your mobile phase due to strong ion-exchange interaction. You have few choices:
• Use much shorter Primesep 100 column (25 or 50 mm). Primesep 100 column has pKa value of 1
• Use a weaker Primesep column-Primesep 200. Primesep 200 has pKa value of 2.
• Increase concentration of acid in the mobile phase (to 0.3% TFA)
Here is application on similar mixture (several basic groups). Please notice number of amines in compounds and length of Primesep 200 column-it is only 10 mm for compounds with several amino groups:
http://www.sielc.com/compound_140.html
I am not sure that Primesep C will work for you due to the fact that you need to use ammonium acetate or formate. AmFm or AmAc does not produce non-volatile salt as in case of TFA. TFA will suppress ion properties of Primesep C column (pKa of the column is 3).