Yes you do open 2 terminals, but you run a different Cgminer in each! each cgminer has settings to match the different devices.. this is the only i way i know for sure to be able to run both BE's and Antminer U1 on the same hub.

the 2 instances of cgminer miner live in 2 seperate folders!

eg,
Instance 1 may be - cd cgminer-3.1.1
Instance 2 may be - cd cgminer

http://i779.photobucket.com/albums/yy78/sweaving/PiCgminer_zps17c0cc2c.jpg