Yes, it is incorrect. I think you are confusing scp with rsync. scp does not support the exclude-from feature.
1. Regarding scp, I think your assumption is right, but for the first time of scp-ing only. When you scp the second time, then you need to remove the uppermost target directory, because it already exists. You should check out the following trick with rsync and the trailing slash:
2. Not with scp, but I think it's the default behaviour of rsync.
I hope this helps.
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