Time Machine, New Mac Mini 2011 Storage Drives, Restoring... questions!

Hi all,
I've currently got a 2011 Mac Mini with a 500GB internal drive, and a 1TB Firewire connected external drive. Backups are done as as single operation to my time capsule.
I've just bought a 250GB SSD and 2TB Hard Drive to fit internally to the Mac, and I'm ready to do the install.
The questions are as follows:
1- Does it matter which way round the drives go inside. Are both interfaces bootable, and when restoring from the time machine backup, can I specify the SSD as the installation drive.
2 - With reference to the above, I guess within the time machine backup there are two sections. 1, my main OS Drive (the 500GB Drive backup) and 2, my external drive backup (the 1TB drive). I presume the recovery console will prompt me to restore the main OS drive, and then when I'm back into OSX I can then perform the restoration of hte other data onto the other internal drive.
Has anyone ever done this, and if so, can they tell me how straightforward it was please?
Really looking forward to more speed, more storage, and less clutter

As far as being bootable, it does not matter which
position the drive is in.  An Option key boot method
will get you to the drive the first time and then set
default once booted in OSX.
I would suggest that you get yourself and external
USB case or one of the many USB->SATA adapters
and do the initial system restore to the SSD before install.
This way you can verify that all is well with the restore
of OSX (and the drive itself) before installing in the Mini as
this is a task you REALLY want to do only once.
As to your time machine restore question, I will defer that
to someone else as I don't use time machine and personally
never cared much for it.

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