No, that's just because flights are longer distance than train trips on average. It doesn't really make sense to compare transatlantic flights with a commuter train...
Ground failure can knock out a train (say the collision system breaks or the politicians are bought off to not require modern PTC). Ground failure can't knock out a plane but it could theoretically knock out a car so I think its a good comparison.
Also when planes encounter bad weather or ... events of any sort (erupting volcanoes?) planes working with ATC can use three dimensions to avoid the hazard. In that way trains have it worse because they can't just tear off across farmland to avoid a tornado and they only have 1-D mobility (speed). I acknowledge its unfair for cars because of the denser road network they have 2-D mobility.
Also the security and 1984 style monitoring and monday morning quarterbacking is brought to a fine art in the aviation community, far beyond the train community.
On one hand the airplane industry is rapidly moving maintenance offshore unregulated uncontrolled facilities, which will likely impact accident rates in the future, although not so bad right now. On the other hand its hard to maintain a train or its tracks offshore, which leads to inherently higher quality, but rushed jobs due to the expense.
