I don't think we disagree here at all. However, I am not sure what you mean when you say "intellect is the conduit through which affect flows." Would you please expand on that a bit.
Certainly intellect (more specifically cognition) and affect work in tandem, but Tomkins's concept of the affect system as a separate system--separate from cognition, the drive system, and the pain system--is what works best for me.
Cognition is about information. Retreiving, analyzing, storing and doing whatever else it does with information. With the imprint of the affect system--for example, nothing enters consciousness unless it triggers an affect--information is given meaning. With affect, any information can have meaning; whereas, without affect, the information is not noticed.
In AIC Volume IV Tomkins states it thus: "Cognitions coassembled with affects become hot and urgent. Affects coassembled with cognitions become better informed and smarter." He is clear that the 2 must operate hand in hand to maximize the utility of both. To paraphrase Tomkins: Affect without cognition is blind; cognition without affect is weak.