Please refer to the section about flying around tall objects:
It looks like you had pretty minimal overlap. 60% or so. That is fine if you are mapping a very flat area, but as soon as you put any vertical features in there, you need more overlap.
Basically, tall objects get less overlap for us to do our calculations on than everything else does and can make certain features not render well. When in doubt, use more overlap or fly higher to make the the effect of the height ratio less obvious.