First, are this hdd all outside your pc?
If yes, an option is to copy these folders on an External Hard disk and transfer those files on your hdd.
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if you only have 1 PC:
option a)
copy your folders on the External HDD, put out your current hdd and put another one inside, then paste your files on it.
option b)
Open your CPU's , if you only have 1 HDD,you can also put another one on the other slot and make it "Slave",
(suppose, your current HDD is the "Master", the other one is the "Slave")
You can move directly your files on the other one from your "Master".
Please update us.