There's a beta version of ClearTrace available that supports SQL Server 2016 at http://www.scalesql.com/cleartrace/ClearTrace.49.zip
This version should support any version of SMO on your machine. Remember that if you're using SQL Server 2016 you'll need to install SSMS separately. That's the bit that installs the parts of SMO that handle trace files.
There's also a minor fix to better parse SQL in the form of:
EXEC sp_executesql @statement=N'SELECT 1'
This is a fairly big change to how I load trace files so please let me know how it works.