All ships has diffrent stats and abillies. Stronger and weaker points. Take the ship which suits you the best and learn to use its powers. In 4.84 gull transport was able to take any bomber out:D
Well some of the balance issues are always showing up time to time, since we dont have a 50+ pros team whos sits to the game developing 8 hours a day. But the things are quite balanced in my eyes.
(Well talking about Cruissers and aboce it goes abour rock, bigger rock, and even more bigger rock, no balance here, but and it shouldnt be)