I don't see why you would use the external harddrive for linux, because it can be alot trickier to use external usb harddrives to boot linux. If you are putting mint on the external drive you have to partition in order to install linux on it, linux normally requires a swap partition(where stuff goes when you run out of ram) and a / partition, which is basically the C:\ drive in windows. I don't understand why you don't want to dual-boot though.
Here is how I would do it
320 gb harddrive
1st partition would be windows
2nd partition would be / for linux
3rd partition would be for swap for linux(around a gig or so)
80 gb drive
I would use this as a data/backup drive
I also don't understand why the 80 gb harddrive will be scrapped, considering you could still use it for data and/or backups
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