2011 imac thunderbolt ports dead

My first time on here - desperate for a solution having taken my machine to Apple Store 3 times, had on-site maintenance from a specialist Apple authorised repairer, all through AppleCare. So far it hasn't cost me anything (and must have cost Apple a fortune), however the issue has not been solved.
I have a mid 2011 imac 3.4 Ghz i7, top of the range with SSD and HD, full RAM. I bought it because I needed FW800 and thunderbolt, it was the only machine apart from the mac mini offering that combination at the time. All worked fine for 2.5 years until one day about 2 months ago I started up the machine and nothing was detected at the thunderbolt port.
System info displayed "no device connected" at either thunderbolt port, despite there being a WD velicraptor drive, a La Cie FW drive (with TB-FW adaptor) and a Sonnet PCexpress card 34 attached. I did an SMC reset (several times) and a PRAM reset (also 5-6 times), no joy.
Took the imac to Apple Store in Geneva where they diagnosed a faulty motherboard. Repaired in 2 days, came back home, plugged everything in and started up, all was fine for about 20 minutes, then thunderbolt devices disappeared again. Same "no device connected" info.
Back to the Apple Store, they started up the machine and said the TB ports were working fine, it must be my peripherals. They wouldn't keep the machine whilst I went back to get my peripherals (I live 2 hours from Geneva) so I had to return 3 days later with the imac and all my cables, devices, hard drives etc. They plugged them all in one by one and, hey presto, everything showed up. Changing devices, ports and cables around (all Apple TB or TB-FW cables) resulted in the same conclusion = no thunderbolt problem, there must be some problem with my installation at my place.
Naturally back at home I got the "no device connected" story. After a long and fruitless phone call to Apple support in France I managed to persuade them to give me on-site maintenance - a guy came from a specialist repairer and noted the problem with my installation - no thunderbolt ports working, "no device connected". He took the machine back to his facility in Geneva and had it on test for 10 days, then came back to me with "no fault found".
So - to sum up - I have a thunderbolt enabled imac whose thunderbolt ports work everywhere except where I need them to work, no-one can come up with a solution, calls to Apple are met with a rather disdainful "what you are reporting is physically impossible", the specialist repairer has given up and I am at the point of throwing this piece of junk out of the window.
Before I do, is there anyone out there who can suggest what might be happening and why. To deepen the mystery, I have a 2011 Macbook Pro with thunderbolt, plugged into the same electricity supply, and when I plug all the same peripherals into the thunderbolt port of that machine, they all show up. Therefore there is apparently no issue with any cable or any thunderbolt enabled external device, except when I try to attach them to my imac.
I'm an experienced mac user with several machines and I have never seen anything like this before, nor (it seems) have Apple themselves. Other users have reported problems with the thunderbolt interface on the imac, but not this exact issue. Apple support won't let me talk to an engineer, so I appear to have exhausted all avenues of support, other than writing directly to Tim Cook and asking for my money back! I would be very grateful for any advice.

It could be the Thunderbolt cables.
Do you have other known working Thunderbolt cables you can try?
Make sure the cable ends are making a strong, tight connection at the connection ends of your Thunderbolt device connections.
Also, your connections on the connected Thunderbolt device might be faulty instead of the ones on your Mac.
Try each Thunderbolt device individually.
A few years back 8 had two WD MyBook drives with both FireWire 400 and 800 connections and on one drive, the FW800 connections were flaky and didn't always keep a connection and the other WD MyBook drive had faulty FW400 connections that would work on and off.
The MyBook enclosures were crap once I realized this , I had  the actual drives removed out of those enclosures by my  local Mac reseller/repair  center transfer these actual WD drives into two OWC FW800 drive enclosures and these, now, still work fine with my newer iMac.
So, it could be either cable issues or peripheral issues, you need to test to find what cable and/or connected periphereal device is causing all of your ills.
It may NOT be your Mac that is the issue with your Thunderbolt connection.
Good Luck!

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