(my theory):
BTC-E has been trading on the old blockchain all day because they didn't update their FTC client (because nobody told them to), they probably have done a bunch of transactions and are now fucked and trying to figure a way out of it.
How can we tell if a site is on the new blockchain yet? Ex. if we want to make a transfer to somewhere, do we have to contact the site owners before we do it?
Does this mean that any new transfers should go through without any issues? I thought the checkpoints were there because there was a fork and people were following the wrong path.