There is no easy answer to the question about rip currents and negative impacts on ecosystems. For the most part, rip currents are a naturally occurring phenomenon at beaches (except of course where they are impacted by man-made structures). They are a critical component of nearshore circulation and movement of sediments offshore. Some studies have investigated their role in transport of pollutants from the nearshore/surfzone into deeper waters.
I'd have to know more details and specifics of the ecosystem of concern, the geographic area of concern, and if the rip currents in question are impacted by man-made structures. I've never heard anyone discuss rip currents in the context of negative environmental impacts. To me it seems this would be similar to discussing waves or longshore currents in the same context. It all depends on what one's point of view is with regard to the “critical ecosystem components” in question. I would imagine that most benthic organisms that live in the nearshore have adapted to the stresses of waves and currents (including rip currents), and most of the more mobile animals using the nearshore zone as a habitat can move about more easily (i.e. move away from any stress or physical threat).
It’s difficult to provide a definitive answer for this question — I've never heard of rip currents discussed in the context of negative impacts to ecosystems. If there is an example of such a thing, I would imagine that it would be very site-specific.
