I have made an organizer for my tamiya 10ml paint bottles. I want it to be gridfinity compatible and to be able to stack them vertically. There are two different versions: 

1. Fully stackable: You can stack holders of different bin sizes (for instance a 1x1 bin on top of a 2x2 one). This is very flexible but you need more material and time to print (in the photos is the white holder).
2. Bin Stackable: Only the corners are raised so you can stack holders of the same number of bins. This is very efficient in terms of printing time and material and it is also slightly more easy to grab the bottles (in the photos is the red holder).

I have created holders of the following bin dimensions: 1x1, 2x1, 2x2, 3x1, 3x2 and 3x3. Let me know if you want/need other dimensions and I will try to create them.

It works great for me, hope it also fits your needs!