The value of using otolith chemistry to characterize recruitment in terms of natal source regions depends on
how consistently spatio-temporal variation can be resolved. The objective of this study was to compare regional classification
patterns in the otolith chemistry of juvenile Spotted Seatrout (Cynoscion nebulosus) between two years experiencing
disparate hydrological regimes, and separated by a five year interlude. Spatial patterns in the whole-otolith chemistry of
juveniles of this estuarine-dependent species were compared between years using five otolith elements and two stable isotopes.
Consistent size-related trends in uptake and deposition were evidenced by parallel ontogenetic relationships for six
otolith variables. Nine natal regions were discerned equally well in both years; and region accounted for similar overall
amounts of variation in the seven otolith variables in both years. However, the otolith variables did not distinguish the
nine regions in the same manner in both years, and natal regions varied in how similar they were in otolith chemistry between
years. Consequently, between-year cross-classification accuracy varied widely among regions, and geographic distance
per se was unimportant for explaining regional patterns in otolith chemistry. Salinity correlated significantly with
regional patterns in otolith chemistry in 2001, but not at all in 2006 when conditions were much drier. Regional patterns in
individual otolith variables reflected either a general trend based on hydrology, a regional-local effect whereby geographically
closer regions exhibited similar otolith chemistry, or a location-specific effect for which there was either no correlation
in otolith concentration among regions between years, or a significant but individualistic relationship. In addition to
elucidating limitations of using otolith chemistry to identify natal source regions or for tracking fish movements, knowing
more about how and why otolith chemistry varies could be used to address specific questions about early recruitment dynamics,
or to aid in the development of more reliable instruments for discerning natal source contributions.