Behavioral deterrents of among-pool movement represent a promising tool for controlling invasive fish populations. To date, much of the research in this area has been focused on the direct effectiveness of different methods of deterrence. However, the effect of these structures on populations in spatially complex habitats is unknown. We combine a metacommunity model with movement data of two invasive species (bighead carp and silver carp) in a large river to assess local and river-wide scale population outcomes of deterrent locations. We calculated (1) which potential deterrent locations are most effective at reducing the growth at the invasion front (2) the river-scale population effects at each location, and (3) what, if any, are the risks imposed by altering the current spatial dynamics. We found that the effects on the population dynamics at the invasion front varied with the location of deterrents, ranging from near zero to effects equal to the reduction in an individual’s movement across the deterrent. The river-scale population growth rate was slightly increased by all potential deterrent placements because the deterrents tended to concentrate more of the river-scale population into pools with the highest recruitment rates. The short-term, transient dynamics followed a strictly decreasing pattern after deterrent placement suggesting no additional short-term risk. These results suggest that deterrents can be an effective and low-risk intervention for the control of invasive carp, although the population level effect will depend on the interaction of the traits and behavior of the species with the physical character and spatial structure of the habitat.