It took a couple of tries, but ultimately I found it relatively easy if I flew out in front of the zeppelin and took out everything on the platforms along the way (I even forgot about the dragon dash function, which would have helped). Even if you don't disable cooldowns, using the nuke skill as soon as possible on the largest group of targets nearby is key to clearing enough structures to safeguard the zeppelin (they can deal with flying opponents themselves, though I did try to keep the summon up as another distraction for them). Part way through you get a skill to direct the zeppelin's attacks, but I never used it (figured they could use it better themselves, and if they were close enough to help me, I'm wasn killing stuff fast enough).
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That Zeppelin mission...?