I suggested in another thread (before the official release) that the phase jumping ability be made a 2-level upgrade for the vas rebel starbases. This lets the SB jump and have full weapons or full health/shields upgrades, but not both. The first level of the upgrade could give a moderate buff to movement and turn speed to mitigate the sacrifice of a level in weapons or health.
Since there isnt any room for another upgrade in the ability card for the orkys, take colony pods out of the Vas Rebel tree. That tech doesnt really fit the rebels anyway IMO.