I guess you could hang an SD card from the MAX II system controller, re-write the rtl for the system controller** such that it both a) configures the two FPGA's from the SD card and b) continues to perform all the other board house-keeping takes it usually does.
** bearing in mind the system controller is not something Altera expect you to change
So, Yes it's possible, but
far from easy. Perhaps it's the challenge you're after...
Alternatively, if you simply want the FPGAs to automatically configure at power (without a PC), read 'Setting Up the Board' in section 4 of the
user guide (
https://www.altera.com/content/dam/altera-www/global/en_us/pdfs/literature/ug/ug_avgt_fpga_dev_kit.pdf). Store your FPGA design(s) in the FLASH memory.
Cheers,
Alex