I don't believe Seagate's Windows executable will see the drive in a USB enclosure. AIUI, the updater needs to detect the drive's firmware modules and compare them against an update matrix in a configuration file, namely ...
http://www.users.on.net/~fzabkar/MS-SD1A.TXTTo do this, it requires vendor specific ATA commands which would be rejected by the USB-SATA bridge chip in the enclosure.
The CD ISO version of the updater does not refer to an update matrix. It only needs to match the family and model. Therefore, if the Windows EXE rejects your drive, use the CD ISO instead.
That said, I don't know whether any portion of the update image file is written to the serial flash memory. The bulk, if not all, of the firmware would be written to the platters. AISI, it would make no difference if you chose to update the firmware, except that it may address the 7200.11 BSY bug, which is a different issue.
As for the patient board, I saw the discolouration, but wasn't sure what to make of it. You can take some measurements of the onboard supplies to narrow down the fault. The post mortem may provide clues as to what happened, and it may also tell you whether the flash memory is likely to have survived.
The MCU gets a Vcore supply from the DC-DC converter immediately above it. Set your DMM on the 200 ohms range and measure the resistance between the 4R7 coil and ground. Also measure the R200 resistors.
The MCU also needs two Vio supplies, one which it shares with the SDRAM (+2.5V), and the other (+3.3V) with the serial flash memory. The +3.3V supply is derived from the DC-DC converter above the preamp connector (J4). Measure the resistance between the 2R2 coil and ground. Alternatively, measure the resistance between pins 4 and 8 of the serial flash (25FW406A = Sanyo LE25FW406A ?).
Measure the resistance between pins 1 and 66 of the SDRAM. Those are the 2.5V supply pins. Alternatively, measure the resistance between ground and pin 1 (or pin 6) of the 6-pin "1L02" device above the SDRAM. This chip is a 2.5V linear regulator.
The DC-DC converter (4R7 coil) to the left of the motor controller is the -5V (?) supply for the preamp. Pins 4,6,8, and 10 of J4 are the +/-5V supplies and the two grounds for the preamp. IIRC, pins 5 and 7 connect to the voice coil. Confirm that the -5V supply is not shorted to ground.
References:
ST1L02PM, Very low quiescent bicmos voltage regulator, Fixed output voltage: 1.8V, 2.5V, 3.3V:
http://www.datasheetarchive.com/pdf-dat ... 630896.pdfhttp://www.st.com/stonline/products/lit ... /11242.pdfHY5DU561622ETP-D43, Hynix, 256M(16Mx16) DDR SDRAM:
http://www.hynix.com/datasheet/pdf/dram ... ETP(Rev0.3).pdf