The biggest difference I see in EE compared to most other mods is the ability to completely reverse the crafting system from vanilla.
So far Vanilla + most other mods use a system where you are using material A to make material B to make material C.
So far, every single multi mod exploit I have seen is made by utilizing the reverse feature.
A way to limit the number of exploits could be, to remove the feature to "reverse engineer" items entirely.
This would still give you the ability to create diamonds from dirt (should you wish to do so) but you can no longer just convert everything into one thing for easy storage.
So far Vanilla + most other mods use a system where you are using material A to make material B to make material C.
So far, every single multi mod exploit I have seen is made by utilizing the reverse feature.
A way to limit the number of exploits could be, to remove the feature to "reverse engineer" items entirely.
This would still give you the ability to create diamonds from dirt (should you wish to do so) but you can no longer just convert everything into one thing for easy storage.