I haven't had any problems with BTC-e when it comes to depositing, trading, and withdrawing coins. I use them frequently to trade between currencies, without issue. Though, I would agree others that you shouldn't keep any high balances in your wallet there. Not just for problems with their "flexible" acceptable use policy, but also just for security reasons.
I have had exactly the same experiences, both with Coinbase (great!) and with BTC-e (terrible!). My current transfer to BTC-e is in limbo, but all my small currency trades there have gone fine.
- Findiggle.