The fact that the (I'm assuming track) automation disappears when you cut special, that would indicate that it is selected . To make sure the automation events are selected along with the track, open the automation lane and then click the small area to the left of the R W buttons. (On the tungsten Theme, it will be a small orange patch when selected)
Are you also pasting special and making sure that the track automation check box is selected?
Also what version and build number of Sonar are you using?