Juvenile Pacific salmon (Oncorhynchus spp.), ecologically-related species, and associated biophysical data were collected from the marine waters of the northern region of southeastern Alaska (SEAK) in 2012. This annual survey, conducted by the Southeast Coastal Monitoring (SECM) project, marks 16 consecutive years of systematically monitoring how juvenile salmon utilize marine ecosystems during a period of climate change. The survey was implemented to identify the relationships between year-class strength of juvenile salmon and biophysical parameters that influence their habitat use, marine growth, prey fields, predation, and stock interactions. Thirteen stations were sampled monthly in epipelagic waters from May to August (total of 23 sampling days). Fish, zooplankton, surface water samples, and physical profile data were typically collected during daylight at each station using a surface rope trawl, Norpac and bongo nets, a water sampler, and a conductivity-temperature-depth profiler. Surface (3-m) temperatures and salinities ranged from approximately 7 to 14 ºC and 16 to 32 PSU across inshore, strait, and coastal habitats for the four months. A total of 46,144 fish and squid, representing 29 taxa, were captured in 96 rope trawl hauls fished from June to August. Juvenile salmon comprised approximately 96% of the total fish catch. Juvenile pink (O. gorbuscha), chum (O. keta), sockeye (O. nerka), and coho (O. kisutch) salmon occurred in 73-84% of the hauls by month and habitat, while juvenile Chinook salmon (O. tshawytscha) occurred in 20% of the hauls. Abundance of juvenile salmon was high in 2012; peak CPUE occurred in July in strait habitat and in August in coastal habitat. Coded-wire tags were recovered from 27 coho salmon and 6 Chinook salmon, mainly including hatchery and wild stocks originating in SEAK and captured in strait habitat; an additional 18 adipose-clipped individuals without tags (presumably originating from the Pacific Northwest) were recovered mainly in coastal habitat. Alaska enhanced stocks comprised 71%, 30%, and 9% of chum, sockeye, and coho salmon, respectively. Predation on juvenile salmon was observed in 3 of 9 fish species examined. The longterm seasonal time series of SECM juvenile salmon stock assessment and biophysical data is used in conjunction with basin-scale ecosystem metrics to annually forecast pink salmon harvest in SEAK. Longterm seasonal monitoring of key stocks of juvenile salmon and associated ecologically-related species, including fish predators and prey, permits researchers to understand how growth, abundance, and interactions affect year-class strength of salmon during climate change in marine ecosystems.