Trying to make a clone backup of my internal HD but my iMac no longer recognizes my external HD.

Short story: I am trying to make a clone of my internal drive using Super Duper! but the 3 TB La Cie external hard drive I want to copy to isn't being recognized by finder or in disk utility. The external hard drive is powered and attached to the desktop via firewire cable. It was properly formatted and made one seemingly successful backup prior to this attempt.
Specs: I have a 27 in iMac with 2 GHz Intel Core i7 processor, purchased in late 2009. Running Mac OS 10.6.8 with 8GB RAM.  I have a 2 TB internal HD with only 80 GB available.
Background: I've had few if any problems with this computer but I'm running out of disc space. It's getting a little sluggish and I find that I am force quitting iPhoto more often than I used to. I was getting ready to put a long overdue (less labor intensive) backup plan in place. I had been using DVDs to back up photos and some documents. My computer crashed last week while working in iPhoto. The screen was speckled and banded and I could not restart.  I was able to boot in safe mode and run disk utility. The verification stopped (corrupted files found) and disk utility recommended repair.  I did a safe mode back up with time machine to the 3 TB ext HD. I tried unsuccessfully to run safe mode with networking to attempt online backup with Crashplan. I read something about installing mac os x on ext HD and then dragging files over to it, but DVD player not functional in safe mode. Then I called Apple support to run what I had done by them and to ask for advice before running disk repair.  We tried a PRAM reset but still couldn't restart in normal mode. He said my safe mode backup should be good and to run the repair, restore if necessary and if that doesn't work bring it to Apple for hardware testing.  I read somewhere that PRAM resets need to be done with a USB (not wireless) keyboard so I tried again doing a few PRAM/NVRAM resets.  No change. Later, maybe even the next day, the screen which had been banded and speckled looked normal again. Not sure why but happy.  I restarted successfully. I ran a time machine backup in normal mode to a 5 TB external HD and wanted to make a bootable clone of my mac HD to the 3 TB ext HD (in place of the safe mode backup). The computer crashed again for a little while and I was eventually able to restart. I downloaded Super Duper! but my mac no longer sees the 3 TB external drive. Maybe I did something wrong when I changed drives in time machine for the last backup?  I'm guessing I could crash again at any moment and would love to get this clone made.

Yes. Formatted correctly. It' s new ext HD and I made a the first back up on it a few days ago using time machine while my computer was in safe mode. When I was able to restart my computer normally I quickly set up a time machine backup to my larger 5 TB ext drive. Also new and formatted for my mac. I was in a rush to get it going before I left for work so maybe I did something wrong. IDK. I can't remember but it did ask me about switching drives vs setting up. Although I don't see why the computer wouldn't see the drive.
I did try another firewire cable and no change. Checked connections again.  The HD turns on and the blue light comes on  (it's a La Cie d2 quadra deskdrive)
Is the SMC reset where you detach devices and restart?  My printer, keyboard and mouse are all wireless and right now I don't have anything else connected.
I'll try another PRAM reset too.
*  Question:
When I connect the 3 TB drive it starts up but I don't see it on my desktop, finder sidebar or in disk utility. If a hard drive starts up but doesn't show up on your computer how do you safely shut it down before disconnecting?  I've been clicking on the desktop and then pressing the eject button on my keyboard just in case.

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