The Baranof Fan is one of three large Alaska deep-sea fans that preserve sedimentary records reflecting both tectonic and climatic processes. However, lack of drill sites in the Baranof Fan makes the depositional history across the southeastern Alaska margin still poorly understood. Sequence correlation from the adjacent Surveyor Fan to the Baranof Fan provides updated age constraints on the Baranof Fan evolution history. Results show that both the Baranof and Surveyor Fans are dominantly glacial and initiated ca. 2.8 Ma and expanded rapidly since ca. 1.2 Ma in response to the major glaciation events; these results place the deposition of the Baranof Fan younger than previously thought (ca. 7 Ma). The glacially influenced Baranof Fan contains two sub-fans that are laterally stacked with their depocenters migrating southeastward. Each sub-fan developed multiple channels that young southeastward as channel avulsion, coevolution, and tectonic beheading progressed over the past ∼2.8 m.y. Tectonic reconstruction suggests that the Baranof Fan is sourced from the Coast Range via shelf-crossing troughs near the Chatham Strait and Dixon Entrance and thus represents a major outflow for the Cordilleran Ice Sheet during glaciations; the Chatham Strait is the major conduit that has fed most of the Baranof Fan channels. Comparatively, the Surveyor Fan is sourced predominantly from the St. Elias Range where a confluence of orogenesis and glaciations are a coupled system and only partly from the Coast Range via the Icy Strait. It is concluded that the formation and expansion of the Cordilleran Ice Sheet has determined the timing of the Baranof Fan deposition, yet Pacific–North America strike-slip motion has influenced the Baranof Fan sediment distribution, as previously suggested, via a series of southeastward avulsing channels and resultant southeastward migration of deep-sea depocenters.