my experience with the S-3 here in SoCal is that the computers are very durable and almost anything else could be the problem. When you crank is there spark? If there is current at the coil but it is not "flashing" (hence no spark) the problem is one of the flywheel sensors or its connections, the check for them is resistance using a multi-meter. When you turn the key "on" do you here the drive relay "click"? Have you checked that both fuel pumps work (with the key off run a test hot lead to the hot (small) terminal on the main pump, that should cause both pumps to operate. There is an inline fuse next to the FI computer, does that have continuity? Another test is to unplug an injector and then crank with a "noid light" in the pigtail, does it flash? My gut feeling is you have a faulty drive relay, When you start cold it works and continues to work as you drive but gets hot, so when restarting it doesn't work, once cold, works again.
84 Spider Veloce
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