Soil waterlogging resulting from extreme precipitation events creates anaerobic conditions that may inhibit plant growth and increase N losses. A three-year (2013)(2014)(2015) field experiment was conducted in poorly-drained claypan soils to assess the effects of waterlogging [0 or 7-days waterlogging at V3 growth stage of corn (Zea mays L.)] and pre-plant application of different N fertilizer sources and post-waterlogging rescue N application (0 or 84 kg N ha −1 of urea plus urease inhibitor (NCU + UI) at V7) on chlorophyll SPAD meter (CM) readings, stomatal conductance, ear leaf and silage N concentrations, N uptake and apparent N recovery efficiency (ARE) of two corn hybrids with varying amounts of flood tolerance. Pre-plant N fertilizer sources included a non-treated control (CO), urea (NCU), urea plus nitrification inhibitor (NCU + NI) and polymer coated urea (PCU) applied at 168 kg N ha −1 . In 7-days waterlogged plots, rescue N applications increased N uptake in PCU treatments 33% and 40% in 2013 and 2014, respectively, as well as in NCU by 48% in 2013. In 7-days waterlogged plots which received rescue N applications, NCU and PCU in 2013 resulted in higher N uptake than CO and NCU + NI by 47 to 77 kg ha −1 . PCU had higher N uptake than NCU and NCU + NI by 78 and 72 kg ha −1 in 7-days waterlogged plots that received rescue N applications in 2014. Corn hybrid showed no differences in N uptake and ARE in our study. Our results indicate combining pre-plant N fertilizer source selection and rescue N applications may be a strategy to reduce possible decreases in corn N uptake caused by early season soil waterlogging in average rainfall years.