Does this NetFlow probe have any options for active/inactive timeout? This is a really important setting to get an accurate report from a NetFlow collector like Scrutinizer: http://www.plixer.com/products/netflow-sflow/free-netflow-scrutinizer.php/. The other thing I notice is that NetFlow V9 seems to be broken on this, it add a bunch of random instances and has no template timeout option that I can see.
You might uninstall and reinstall this, at some point in the last week or so I rebuilt that package as it was pulling the wrong version of the code.
Alternately, there are instructions on the wiki for setting up softflowd.