Please share the .*iic file which you have used to program the EEPROM. you can read the contents of EEPROM by using some vendor commands. Refer vend_ax example avaialble in the path (C:\Cypress\USB\CY3684_EZ-USB_FX2LP_DVK\1.0\Firmware)after installing CY3684. Also refer the application note in the following link http://www.cypress.com/?docID=41632.
if possible share the firmware also.