The main key with EE is moderation. Sure, it can be abused, but then so can any mod (and especially multiple mods in combination) -- there's always ways to make infinite this or overpowered that. It doesn't matter; it's a game, play it whichever way seems fun to you.
Personally, I'm still on my very first Minium stone (and I've been playing my map for quite a while now). I used to use it mostly only for obsidian and enderpearls -- and now I have a farm for the latter (it's called "finding an end portal"), so I just use that instead. (I probably could make an obsidian farm too if I really wanted to, but I don't really use it all that much). Nowadays (since I have a decent quarry and storage system going) about all I use it for is dyes, since they're a pain to hunt down.
Personally, I'm still on my very first Minium stone (and I've been playing my map for quite a while now). I used to use it mostly only for obsidian and enderpearls -- and now I have a farm for the latter (it's called "finding an end portal"), so I just use that instead. (I probably could make an obsidian farm too if I really wanted to, but I don't really use it all that much). Nowadays (since I have a decent quarry and storage system going) about all I use it for is dyes, since they're a pain to hunt down.