I just checked over the schematics of the 1.15x product that your'e talking about...
From my perspective (several decades of analog and digital circuit design, EE), there are two possibilities if in fact the power supply is 'blown up'.
The supply is capable of handling input voltages of up to 16V:
references:
http://www.aosmd.com/pdfs/datasheet/AOZ1025DI.pdf AOZ1025 Datasheet (1.2v Supply)
http://www.aosmd.com/pdfs/datasheet/AOZ1021AI.pdf AOZ1021 Datasheet (3.3v Supply)
http://www.ztex.de/downloads/usb-fpga-1.15x.pdf 1.15x schematic, where a note is actually included on page 4 near the power connector (Input Voltage: 4.5..16V)
So, even if your supply is putting out 13.X volts, it's not really capable of hurting the power supplies. It's possible that he means "blew up the capacitors", but I really doubt a guy as smart as ztex would use caps not rated to AT LEAST 16, and probably 25 Volts on the input.
So, as said, I suspect two possibilities here:
1) There was a real and significant problem with the board, and the output of the supply or supplies was essentially shorted. Assuming ANY level of quality control, pretty unlikely.
2) You plugged in a power supply that was putting out > 16V (knowingly, unknowingly, admitting or not admitting).
If no shorts or problems can be found with the board, and he told you using a 12V supply was safe (he can't assume that you mean a 12V supply that isn't a 12V supply, by the way, and 13.5 isn't 12...), I wouldn't warranty the board either. Sorry, but I wouldn't... Now, I would offer a reasonable price for repair and retest, but that's me..
I strongly believe that the board was fed significantly more than 12, 13.5 and even 16volts.. I've worked a LOT with smps parts (although not the AOZ102X in particular), and they can usually stand quite a bit more than their rating for a short period of time anyway... In fact, the absolute maximum of the AOZ parts from their datasheets is 18V, meaning they can survive that for at least some amount of time...
Unless their is something else to this story that I don't know - I really don't blame ztex for not warrantying the board for you. Should ztex provide (or at least sell) a compatible power supply - yeah, probably a smart move.. but He told you to use 5-12, you admit you used 13.5, and it won't actually fail until 18ish.. Something isn't adding up here...