I have no idea if you need it for a MS app.
Looking at the wiring diagrams, the ignition signal to the factory ECM comes through the noise suppressor filter. So if the filter is unhooked, that cuts the ignition signal to the ECM. So I believe that is why the engine won't start, in a factory configuration, if the filter is removed/unhooked.
If you want to research error code 41 (ignition signal circuit...no signal), then that may help you figure out what you need for a MS app., to get the engine to run.