Extinction achievements triggering despite species not being extinct is a known bug.
Login to the SLG account on play.eco using the "Login with Steam" option, that should update your account status immediately.
Send your logfiles of a session in which a crash happened to [email protected].
You can find where to find the logfiles here: https://github.com/StrangeLoopGames/EcoIssues/wiki/Getting-the-Eco-game-log-file