Please try creating a new group and setting it to show for Hero Only and add the stats to that group that you have in the other group and you should see your hero stats. The Hero Only group has been working for me fine in this version.
Also, if anybody who hasn't already would be willing to submit logs of them experiencing this issue, we would appreciate it. Just enable logging (Configure --> Options --> Logging Enabled and restart PT3) and attempt to import while playing for one full orbit then attach the C:\Program Files\PokerTracker 3\PokerTracker.log and C:\Program Files\PokerTracker 3\PokerTrackerHud.log files to a
support ticket and it will help us pin down and fix this issue permanently.