I just return with my family (three teenagers) from two weeks Utila. We traveled by ferry and land to go from San Pedro Sula to Ceiba and back. Other then worrying about roadblocks by protesters, curfews and airport closures, everything is pretty normal. On Utila nothing really seems affected except a few extra soldiers on the island (teenages with M-16's!)
The nice thing is that over 70% of the population supported throwing the bum out, and I didn't speak with even one Honduran who didn't support the coup. The protesters themselves, especially the organizers, were widely believed to be being paid by Chavez. Because the coup was so widely supported, everyone is pretty happy, and travel is not a big problem.