I know people have to extra work when booting a standard distro installed in an external disk but I haven't gone into it myself because I can't fill up the empty partitions of my 4 internal disks after installing more than 100 systems.
An internal hard disk can transfer data at a much higher speed and the performance of a Linux in an external disk is likely to suffer significantly.
To overcome the problems of booting to an external disk there seems to be a few options available like (a) Keep the kernel in an internal disk, (b) specially rig the ram disk for USB application or (c)slow down the booting process using a boot loader designed for floppy etc.
I can't offer any more help until I start looking into this area.
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