You're asking for a total revamp of the system, not going to happen too soon
Gemini, Itbit, Bitstamp, GDAX, Kraken, Coinfloor and perhaps a few others.
Kraken is broken but unhacked. Bitstamp was hacked but users weren't affected. GDAX is a weird flaky place but has never been hacked and is backed by extremely deep pockets. The Japanese exchanges are now rigourously regulated and backed by proper finance heavyweights.
I think it's only a matter of time before the alt only places have to shape up or ship out. It's also likely that the above list will add more alts as time goes by too. Once more of them have margin trading the volume will move towards them too.
The revamp is happening, albeit slowly.
Kraken is unregulated. They can be seized anytime. They play a very risky game on the client's funds. I don't know what's in their mind