Just an update, I excluded my antivirus, removed any back prgrammes which also included TrackIR, it only froze twice, once during an explosion and another in the beginning, during a 10 minute flight.
Afterwords I ran the game again this time included the TrackIR and the game started doing the usual one second freeze. If TrackIR does not accentuate the freeze, could it be the one causing it?
Tried the two configurations a number of times with similar results.