The problem with transparent tiles is that in game performance is most certainly going to rapidly go down and level size up the more layers you use. Stefan did not comment on what method he prefers, but apparently the most sane one to use layers that gonstruct is using now appears to be working in v6, so I see no reason to change it back. If you want to use layered levels in v5 you're probably best off using the older version (0.2.0 i think?), or if you want you can add an option to the current version.
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