Just beat the game for the first time on easy with the Engi (doughnut) ship, and I'm honestly surprised I managed it. It started out being a run just to grab a few achievements, but it turned out to be my first victory!
I did it without cloaking, which is the surprising part. 3 shield bubbles, 3 ion weapons and 2 Mark 1 anti-ship drones. 48% dodge too, but no teleporter either. After about 3-4 volleys of my ion cannons the shields were down and from there I could basically shut down any subsystem I wanted (i.e. weapons and teleporter).
So have faith people! It's not impossible to beat the boss with a variety of builds (on easy at least), which is one of the biggest complaints I've heard about the game so far.