What year car?
At some point you will get a check engine light if the super charger isn't engaging. After a cold start the SC runs to provide air injected into the exhaust to assist in heating up the catalytic converters. After the engine warms up, car comes to a stop and is idling for 5 ish sections, it engages again to test oxygen sensor function.
As for K40 relay, is this the long thin box with 5 or so small fuses and one large fuse? On non SC cars in the late 90's, the large fuse runs the electrically driven emissions air pump. For a SC car I'm not sure where the clutch signal comes from. Try to gain access to a wiring diagram and I can have a look.
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