I wouldn't worry about it but you may notice some loss of power in the highest passes.
Two summers ago I went through some 7000 foot passes and found the bike struggling. I wouldn't call it roughness, it felt and sounded smoother than usual but lacked power. The issue disappeared when I lost some altitude.
You're way down in air pressure by then and presumably it has the same effect as a lower compression ratio. Nothing to worry about but don't drag-race any EFI bikes up hill in the passes.
By the way, I wen't back through the rockies this summer but I guess never quite as high so I didn't experience it.
