Okay, I am done with implementing everything I wanted to do for the 0.3.0 release, so you can cross out the bottom 3 issues on your thing. Additionally, I think we already fixed the dependency issues quite some time ago.
Here's how the cells currently look:
It's missing a nucleus model, but once I get it, it should take me around 10 minutes to add it in at the most.
I've already posted on the multiple hexes issue, but basically, some organelles now have multiple hexes and you can rotate them by clicking A and D. I also overhauled the visuals in the microbe editor. You now have organelle models on top of grey hexes. When you select an organelle, it turns green if you can place it somewhere and red if you cannot. Here's are two visuals:
In the first image you cannot place a mitochondrion on top of the nucleus, but on the second you can
place it next to the nucleus.
I suggest we do our first release candidate this week and add all of the missing models and fix the bugs later.