The 2008 Willamette Project Biological Opinion requires improvements to operations and structures to reduce impacts on Upper Willamette River Chinook salmon and steelhead, including evaluations of the feasibility of installing new juvenile collection and bypass facilities at three dams on the Willamette River in Oregon: Cougar, Detroit, and Lookout Point dams. Understanding the distribution of juvenile salmonids in the reservoirs will be critical for the development and operation of structures to pass fish safely and efficiently. This report describes results of mobile hydroacoustic surveys of fish distributions in Cougar Reservoir, a 518-ha impoundment behind Cougar Dam on the South Fork of the McKenzie River near Blue River, Oregon.Day and night mobile hydroacoustic surveys of Cougar Reservoir were conducted once a month from April through December 2011 to quantify the horizontal and vertical distributions of fish. An inflatable pontoon raft, outfitted with a frame holding four 6° split-beam transducers and a global positioning system, was pushed about 4 m ahead of the survey vessel to minimize fish avoidance of the bow wave and boat and maximize detectability. In November and December, transducers were deployed from the front of a pontoon boat with similar results. Two hydroacoustic systems were used to acquire echo trace data to estimate densities at night and during the day. A Precision Acoustic System transceiver controlled three forward-looking split-beams aimed 4°, 11°, and 18° below horizontal to sample fish in three respective depth strata (0−2, 2−4, and 4−6 m) 12.9−15.6 m ahead of the raft. A BioSonics DT-X system controlled one split-beam transducer aimed 10° forward from vertical to sample fish in 2-m strata from 6 to 62 m deep.The length of the smallest fish that could be detected with the -56 dB threshold was about 35 mm, but given the narrowness of acoustic beams for detecting fish <-53 dB, we only had reasonable detectability for fish >-53 dB (about 50 mm long). We estimated the areal density of fish (fish/hectare) and total numbers of fish in two length classes (50 to 200 mm, and > 200 mm) for the entire reservoir and five reservoir zones by month, and plotted densities on maps of the reservoir for every month surveyed. Surveys were scheduled to coincide with U.S. Geological Survey (USGS) Lampara seine sampling of pelagic areas and Oregon Department of Fish and Wildlife (ODFW) trap-net sampling of littoral areas to obtain concurrent species composition data.Hydroacoustic estimates of fish densities in pelagic areas were low, as were Lampara seine catches (39 fish in 353 hauls over 9 months; 31 [79.5%] of which were Chinook salmon). Given low catches in the Lampara net, species composition information for pelagic areas was not as robust as that derived from trap netting in littoral areas. The ODFW trap nets caught 1072 fish in 35 trap-net nights over 8 months, and the species composition was 69.2% dace, 24.3% Chinook salmon smolts, 3.6% rainbow trout, and 2.9% cutthroat trout. The smallest dace ...