If trains use 90% less energy, then why aren't they 90% cheaper? I mean the cost to run a train is almost entirely fuel, and the same is true for an airplane. (There is some staff, but it's about the same for both.)
So without even reading the study I'm already sure it's wrong.
And I found it - they assumed a load factor of 100% for trains, but 72% for airplanes. When actually in the real world airplanes are pretty full and trains are not - but they run them anyway. And trains will probably use more fuel if they were full, so their entire study is worthless.
(They do it a lot in the study - they use realistic or worse case number for planes and cars, but best case numbers for trains. And explain it by saying "This is how we can make the rail system better.")
Oh, and BTW the study they rely on doesn't say 90% anywhere. They just pulled that number out of thin air.