This data was generated as part of synoptic sampling conducted at the Coweeta LTER between June 2009 and May 2010. 49 wadeable streams with low levels of development were sampled throughout the Upper Little Tennessee River Basin in the Southern Appalachians. Effects of riparian vegetative conditions on a suite of channel morphological variables were investigated: active channel width, variability of width within a reach, large wood frequency, mesoscale habitat distributions, median particle size, and percent fines. Stream mesoscale habitat areas for each 150 m stream reach were recorded in this particular dataset. At each site, a uniform 150 meter section of stream was surveyed. Observers kept a running tally of the areas associated with various mesoscale habitat units including, cascades, riffles, pools, alcoves, pocket water, runs, glides, and obstructions.