Whenever I override a phtml file in Magento 2.1.2, the block simply disappears from the page. I've successfully copied over the files from:
over to my custom theme (copy of magento-blank) folder
I turn on template hints and every block that's overridden (showed up as module-theme) does not show up anymore. As an experiment, I renamed the original html folder and replaced it with a symbolic link pointing to the new folder in my theme and the blocks show up just fine and can be edited without a problem. I've tried the upgrade, compile and static-content:deploy command lines and I still have no luck.
Thank you for any assistance in advance.