The Blaini Formation, an important marker horizon in Indian stratigraphy, preserves the imprints of the Neoproterozoic glacial event. Although the sedimentology and genesis of the Blaini Formation have been extensively investigated, its syn-sedimentary and tectonic deformation styles remain insufficiently understood. This study presents the first report of syn-sedimentary deformation structures, such as load-and-flame structure, clastic vein, syn-sedimentary fault, and sand dyke, in the Neoproterozoic Blaini Formation. The development of these syn-sedimentary structures is attributed to the basinal instability. New mapping reveals the previously unreported juxtaposition of two couplets, each comprising diamictite and dolostone, within the Blaini Formation. Several lines of evidence from the mesoscopic-scale structures and the outcrop pattern reveal that the juxtaposition of the two diamictite-cap dolostone couplets is due to the tectonic imbrication of the Blaini Formation during the Himalayan Orogeny. The diamictite and dolostone beds, occurring in the two couplets, belong to the same stratigraphic levels, respectively. Our observations reveal that the Blaini Formation was deformed by two coaxial fold groups, brittle faults, and brittle-ductile and ductile shear zones during the Cenozoic Himalayan deformation. Any estimate on the thickness of the Blaini Formation is susceptible to significant overestimation without accounting for isoclinal folding and thrust-induced duplication. The Main Boundary Thrust is interpreted as an imbricate structure comprising repeatedly folded and thrust-bounded horses.