That's a shame, provided the damage isn't too serious, you can usually repair an ECU with leaking capacitors.
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I had a couple suffer with that issue.
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I also had a rev2 manual NA a few years ago which kept cutting out and there were no signs of damage in the ECU.
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Unable to get to the bottom of the problem, I took it to a friend of mine who runs a garage and as you mentioned it turned out that the ECU was cutting the injectors after the engine had been running for a while.
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Once you let it cool down, you could start it again, but it would again cut out after a while.
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It made me wonder whether something in the ECU was breaking down through heating up or just current passing through.
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But as I couldn't see any physical signs of a problem in the ECU, I bit the bullet and replaced the ECU, and the issue went away.
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Unfortunately the hardest part was finding a replacement Rev 2 ECU, there were plenty of Rev 1 and Rev 3+, but Rev 2s seemed quite rare.
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Which also meant they often carry a fairly heavy price tag.
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MR MR2 is selling a rev 2 automatic ECU on ebay at the moment at
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£85, but you need to check that the part number corresponds to that on your faulty rev2 ECU.
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He's quite a useful source for parts, but not the cheapest.
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There's no guarantee that changing the ECU will fix your problem, but it does seem very similar to the issue I had.
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Good luck
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Paul