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I used the same setup and was also frustrated. I replaced Orgzly with Orgro [0] which can only view files but works much better for my purposes.
[0] https://github.com/amake/orgro/
I use https://github.com/Catfriend1/syncthing-android which has an option to run only every X minutes of each hour, as a decent tradeoff.
This version also ships and Android Quick Settings tile that will start Syncthing for those X minutes and stop it outside of that schedule, so I'll hit the button as I'm putting on shoes to go out after making a shopping list on my phone or what have you