Re: trees in above ground landscape beds
The only way to save the trees is to change your thinking on the landscape. Most of the tree's roots will be within the raised bed, so removing any dirt from the bed will kill the tree. Rather than remove the beds, can you remove the RR ties and build up dirt around the bed to create mounds? While you may not be able to save all the trees, you could do this with a few specific trees and make specimens out of them.
Another idea would be to change out the RR ties for either landscape timbers or stacking retaining wall blocks which would update landscape considerably.
I suffer from CDO ... Its like OCD, but in alphabetical order, LIKE IT SHOULD BE!!!