It won't run without the upper intake. The injectors being under the plenum makes diagnosing a wiring issue a bit more difficult given your lack of access to the wires. You can use T pins to probe at the ECM connector and check signal there, but if the issue is in the harness you'll still have to check at the injector itself. An LED test light connected in parallel will give you some idea of how good your signal is or isn't, as gaps in the flash pattern will be pretty obvious at idle. An oscilloscope would be better, and can be had for less than $50 off Amazon, but I can understand not wanting to buy a tool you may only use once.
Backprobing the injector connectors like this:
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Using T pins:
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Can give you a useful test point without having to damage the wires themselves. You may have to pull the plenum to set this up, but it will allow you to eliminate the ECM and harness as a potential problem, or confirm and have a diagnosis rather than having to replace more parts and hope for a fix.