Yes, but parallel connection is required. To power one Pod Drive 3.0 Evo with E40, you need two E40 batteries in parallel. To power one Pod Drive 6.0 Evo with E80, you need two E80 batteries in parallel.
We recommend the E80 battery for Navy 3.0 Evo, and E175 battery for Navy 6.0 Evo. For more info, please check ePropulsion Tutorial: ePropulsion E-Series Battery | General Instructions