Phragmites australis is one of the most invasive wetland plants on the planet with both native and invasive haplotypes occurring in the United States. Three Phragmites haplotypes (Delta-, EU- and Gulf-types) co-occur in marshes of the Mississippi River Delta (MRD), where a recent dieback of Phragmites has prompted investigations about the potential for recolonization by seed. In other areas of the US, the invasive EU-type has been shown to spread by seed, yet little is known about reproduction modes of the Delta- and Gulf-types. We conducted a survey at 35 sites along the Mississippi River Delta region in southeast Louisiana to examine the potential for sexual reproduction across haplotypes as well as the potential for hybridization. Seed and pollen samples were collected from Phragmites populations to examine flowering phenology and determine pollen viability of the three lineages. We also conducted a seedbank assay in stands of three haplotypes to test the potential for recruitment by seed. Despite the observed potential for sexual reproduction in Delta- and EU- types, no Phragmites seedlings germinated from the seedbank. EU was the only haplotype to exhibit germination from seeds collected from seed heads. Both spatial separation and temporal isolation in flowering times indicate that hybridization between Phragmites haplotypes in the lower MRD is unlikely. High pollen production, increased pollen production following dieback, and viable seeds in the EU-type suggest that this invasive haplotype has a greater potential to invade new areas and adapt to stressors through sexual reproduction compared to than Delta-or Gulf haplotypes.