I am thinking making the inside of the launcher come to a right angle while keeping the bevel on the outer side could be a good compromise. The angular inside does keep some of the blockiness, and leaves a broad flat surface on the bottom for the ship to sit on, while at the same time, the outer bevel could mirror the top to give some visual continuity and also prevent the ship from being too fat and square.
I do agree looking like a rush job hacked together does fit the profile of the ship, but it doesn't have to be a bunch of boxes bolted together. Some angling is good, it's just at this point, the bottom of the launchers don't seem to jive with the rest of the design (even with the slight curve to the main hull and the beveled corners, the main hull is still relatively rectangular), or the fact it sits on the launchers from what we have seen. Those cowlings on the top look great, and mirroring the overall shape would be a good starting point for the bottom.