Hello,
NetApp is well qualified to run few simultaniusly fpolicies with different products, the only limitation to that is that you have to make sure that both products are configured to use the same "Sync/Async" configuration.
the Sync/Async config is determined by the product itself and not something you can change from the netapp fpolicy configuration.
when you type the fpolicy command on your netapp console you should expect something like this:
File policy test (file screening) is enabled.
File screen servers P/S Connect time (dd:hh:mm) Reqs Fails
------------------------------------------------------------------------------
192.168.1.1 \\TEST Pri 15:21:27 192624147 0
ServerID: 188 IDL Version: 1 SMB Request Pipe Name: \ntapfprq
Options enabled: async, version2
Operations monitored:
make sure that both of your fpolicies shows the same (btw: when async doesnt show up it means that its in sync mode), trying to use each one of them with different settings will cause severe issues to the netapp.
I'm not too familiar with NTP or the way they configure their product to use fpolicy, but in Varonis you can definitely choose how the fpolicy will work (Sync/Async) via the Varonis gui.
Hope this helps.