The first step is to download all your data from EtherFlyer and import them into Koinly. There are a few ways you can do this:
Note that if you decide to use CSV files, you must make sure to import your deposits/withdrawals and trades for ALL previous years - not just the current one!
That's it. The only other thing to keep in mind is to tag your airdrops/forks so they appear as Income on your final crypto tax reports!