If CTM is present and an ore texture has a CTM texture it renders transparent in a Bedrock ore, it's resource pack dependant so by default it doesn't happen.

It seems that .mcmeta files with the CTM flag causes the texture to not render... Even if it,s only like this { "ctm"{" ctm_version":1}}
So it's pure incompatibility with CTM. Maybe CTM stores the texture somehow different and Bedrock ores can't retrieve the texture for the block's layer...

I'm moving to mc 1.13 so i will be closing this issue. she ya in 1.13 I hope you don't abandon this idea is great!