I think they should -- provided they did something like stagger your character, or did catastrophic damage. As they are, they're a steady stream of damage the purpose for which is to keep you in cover while the cover-buster loaders they construct move in. If the heat seeker swarms had an internal cooldown, that would have to be counterbalanced by higher front-loaded damage, or some supplemental effect that made avoiding them necessary.
That's for the normal constructors, anyhow. Badasses already have nukes for that purpose, and as such ought to remain spam-tastic.